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- B::Asmdata(3) - Autogenerated data about Perl ops, used to generate bytecode
- B::Assembler(3) - Assemble Perl bytecode
- B::Bblock(3) - Walk basic blocks
- B::BUtils(3) - Helper functions for op tree manipulation
- B::Bytecode(3) - Perl compiler's bytecode backend
- B::Bytecode56(3) - Perl 5.6 compiler's bytecode backend
- B::C(3) - Perl compiler's C backend
- B::CC(3) - Perl compiler's optimized C translation backend
- B::Compiling(3) - Expose PL_compiling to perl
- B::Concise(3) - Walk Perl syntax tree, printing concise info about ops
- B::COW(3) - B::COW additional B helpers to check COW status
- B::Deobfuscate(3) - Deobfuscate source code
- B::Deobfuscate::Dict::Flowers(3)
- B::Deobfuscate::Dict::PGPHashWords(3)
- B::Deparse(3) - Perl compiler backend to produce perl code
- B::Disassembler(3) - Disassemble Perl bytecode
- B::Generate(3) - Create your own op trees.
- B::Hooks::EndOfScope(3) - Execute code after a scope finished compilation
- B::Hooks::EndOfScope::PP(3) - Execute code after a scope finished compilation - PP implementation
- B::Hooks::EndOfScope::XS(3) - Execute code after a scope finished compilation - XS implementation
- B::Hooks::OP::Annotation(3) - annotate and delegate hooked OPs
- B::Hooks::OP::Check(3) - Wrap OP check callbacks
- B::Hooks::OP::Check::EntersubForCV(3) - Invoke callbacks on construction of entersub OPs for certain CVs
- B::Hooks::OP::PPAddr(3) - Hook into opcode execution
- B::Hooks::Parser(3) - Interface to perl's parser variables
- B::Keywords(3) - Lists of reserved barewords and symbol names
- B::Module::Info(3) - information about Perl modules
- B::Op_private(3) - OP op_private flag definitions
- B::OPCheck(3) - PL_check hacks using Perl callbacks
- B::Showlex(3) - Show lexical variables used in functions or files
- B::Size2(3) - Measure size of Perl OPs and SVs
- B::Size2::Terse(3) - Printing info about ops and their (estimated) size
- B::Stackobj(3) - Stack and type annotation helper module for the CC backend
- B::Terse(3) - Walk Perl syntax tree, printing terse info about ops
- B::Utils(3) - Helper functions for op tree manipulation
- B::Utils::OP(3) - op related utility functions for perl
- B::Xref(3) - Generates cross reference reports for Perl programs
- B2C2(4) - webcamd driver for B2C2 FlexcopII(b)/III
- B2G(1) - Traditional to Simplified Chinese converter
- B2I_PVK_BIO_EX(3ossl) - Decode and encode functions for reading and writing MSBLOB format private keys
- B2SUM(1) - compute and check BLAKE2 message digest
- b3270(1) - IBM host access tool back end
- B43-FWCUTTER(1) - Utility for extracting Broadcom 43xx firmware
- BABELD(8) - ad-hoc network routing daemon
- Babelfish(3) - Perl extension for translation via Babelfish or Google
- BABELTRACE(1)
- BABELTRACE-LOG(1)
- backend(7) - cups backend transmission interfaces
- BACKEND-SPEC(7) - interface between jw and its backends
- BACKGAMMON(6) - the game of backgammon
- BACKLIGHT(8) - configure backlight hardware
- BACKLIGHT(9) - BACKLIGHT methods
- BackProp(3) - A simple back-prop neural net that uses Delta's and Hebbs' rule.
- BACKTRACE(3) - fill in the backtrace of the currently executing thread
- BACKUPD(8) - Cyrus IMAP documentation
- BackupPC(1)
- BackupPC::XS(3) - Perl extension for BackupPC libraries
- backupuser(1) - User backup utility
- Bacula(8) - The Network Backup Solution
- BACULA-DIR(8) - Bacula Director
- BACULA-SD(8) - Bacula's File Daemon
- BACULA-TRAY-MONITOR(1) - Bacula's 'System Tray' monitor
- BADBLOCKS(8) - search a device for bad blocks
- Badger(3) - Perl Application Programming Toolkit
- Badger::App(3) - base class application module
- Badger::Apps(3) - factory module for application modules
- Badger::Base(3) - base class module
- Badger::Class(3) - class metaprogramming module
- Badger::Class::Config(3) - class mixin for configuration
- Badger::Class::Methods(3) - metaprogramming module for adding methods to a class
- Badger::Class::Vars(3) - class module for defining package variables
- Badger::Codec(3) - base class for encoding/decoding data
- Badger::Codec::Base64(3) - encode/decode data using MIME::Base64
- Badger::Codec::Chain(3) - encode/decode data using multiple codecs
- Badger::Codec::Encode(3) - codec wrapper around Encode
- Badger::Codec::Encoding(3) - base class codec for different encodings
- Badger::Codec::HTML(3) - encode and decode reserved characters in HTML
- Badger::Codec::JSON(3) - encode/decode data using JSON
- Badger::Codec::Storable(3) - encode/decode data using Storable
- Badger::Codec::Timestamp(3) - encode/decode a timestamp via Badger::Timestamp
- Badger::Codec::TT(3) - encode/decode data using TT data syntax
- Badger::Codec::Unicode(3) - encode/decode Unicode
- Badger::Codec::URI(3) - URI encode/decode
- Badger::Codec::URL(3) - URL encode/decode
- Badger::Codec::YAML(3) - encode/decode data using YAML
- Badger::Codecs(3) - modules for encoding and decoding data
- Badger::Comparable(3) - base class for comparable objects
- Badger::Config(3) - configuration module
- Badger::Config::Filesystem(3) - reads configuration files in a directory
- Badger::Constants(3) - defines constants for other Badger modules
- Badger::Data(3) - base class for data object
- Badger::Data::Facet(3) - base class validation facet for simple data types
- Badger::Data::Facet::Class(3) - metaprogramming module for data facet classes
- Badger::Data::Facet::List(3) - base class for list validation facets
- Badger::Data::Facet::List::MaxSize(3) - validation facet for the size of a list
- Badger::Data::Facet::List::MinSize(3) - validation facet for the size of a list
- Badger::Data::Facet::List::Size(3) - validation facet for the size of a list
- Badger::Data::Facet::Number(3) - base class for numerical validation facets
- Badger::Data::Facet::Number::Max(3) - validation facet for a minimum numerical value
- Badger::Data::Facet::Number::Min(3) - validation facet for a minimum numerical value
- Badger::Data::Facet::Text(3) - base class for text validation facets
- Badger::Data::Facet::Text::Length(3) - validation facet for text length
- Badger::Data::Facet::Text::MaxLength(3) - validation facet for text length
- Badger::Data::Facet::Text::MinLength(3) - validation facet for text length
- Badger::Data::Facet::Text::Pattern(3) - validation facet for text pattern match
- Badger::Data::Facet::Text::Whitespace(3) - validation facet for whitespace
- Badger::Data::Facets(3) - factory module for data validation facets.
- Badger::Data::Type(3) - base class for data types
- Badger::Data::Type::Class(3) - metaprogramming module for data type classes
- Badger::Data::Type::Number(3) - base class data type for numbers
- Badger::Data::Type::Simple(3) - base class for simple data types
- Badger::Data::Type::Text(3) - base class data type for text
- Badger::Data::Types(3) - factory module for Badger::Data::Type objects
- Badger::Date(3) - simple object representation of a date
- Badger::Debug(3) - base class mixin module implement debugging methods
- Badger::Duration(3) - simple class for representing durations
- Badger::Exception(3) - structured exception for error handling
- Badger::Exporter(3) - symbol exporter
- Badger::Factory(3) - base class factory module
- Badger::Factory::Class(3) - class module for Badger::Factory sub-classes
- Badger::Filesystem(3) - filesystem functionality
- Badger::Filesystem::Base(3) - common functionality for Badger::Filesystem modules
- Badger::Filesystem::Directory(3) - directory object
- Badger::Filesystem::File(3) - file object
- Badger::Filesystem::Path(3) - generic fileystem path object
- Badger::Filesystem::Virtual(3) - virtual filesystem
- Badger::Filesystem::Visitor(3) - visitor for traversing filesystems
- Badger::Filter(3) - object for simple filtering
- Badger::Hub(3) - central repository of shared resources
- Badger::Hub::Badger(3) - central hub for accessing Badger components
- Badger::Log(3) - log for errors, warnings and other messages
- Badger::Log::File(3) - writes log messages to a log file
- Badger::Logic(3) - parse and evaluate simple logical expressions
- Badger::Mixin(3) - base class mixin object
- Badger::Modules(3) - a module for loading modules
- Badger::Period(3) - base class for Badger::Date and Badger::Time
- Badger::Prototype(3) - base class for creating prototype classes
- Badger::Rainbow(3) - colour functionality
- Badger::Test(3) - test module
- Badger::Test::Manager(3) - test manager module
- Badger::Timestamp(3) - object representation of a timestamp
- Badger::URL(3) - representation of a Uniform Resource Locator (URL)
- Badger::Utils(3) - various utility functions
- Badger::Workplace(3) - a place to do work
- Badger::Workspace(3) - an object representing a project workspace
- BADSECT(8)
- BADVALUES(1) - Discussion of bad value support in PDL
- baka-mplayer(1) - A free and open source, cross-platform,
- BALANCE(1) - A simple TCP proxy with load balancing and failover mechanisms.
- BALLERBURG(6) - A castle combat game
- Balloon(3) - pop up help balloons.
- BalloonContents(1)
- BALLS(1) - preprocessor for space-filling models in Raster3D molecular graphics package
- Balsa(1) - the GNOME email client.
- BambooTracker(1) - YM2608 (OPNA) tracker
- BANDWHICH(1)
- BankOfAmerica(3) - Bank of America backend for Business::OnlinePayment
- Banner(1.0) - the Banner for Afterstep
- BANNER(1) - print large banner
- BANNER(6) - print large banner on printer
- BAOBAB(1) - A graphical disk usage analyzer for the GNOME desktop
- BAR(1) - show information about a data transfer
- barchart(n) - Bar chart for plotting X-Y coordinate data.
- BARCODE(1) - a stand alone program to run the barcode library
- BARCODE(3) - a library to create and print bar codes
- barcode(6) - draws a random sequence of barcodes for the products you enjoy
- Barcode::Code39(3) - Create Code39 barcode image with GD
- Barcode::COOP2of5(3) - Create COOP2of5 barcode image with GD
- Barcode::EAN13(3) - Create EAN13(JAN13) barcode image with GD
- Barcode::EAN8(3) - Create EAN8(JAN8) barcode image with GD
- Barcode::IATA2of5(3) - Create IATA2of5 barcode image with GD
- Barcode::Industrial2of5(3) - Create Industrial2of5 barcode image with GD
- Barcode::ITF(3) - Create ITF(Interleaved2of5) barcode image with GD
- Barcode::Matrix2of5(3) - Create Matrix2of5 barcode image with GD
- Barcode::NW7(3) - Create NW7 barcode image with GD
- Barcode::QRcode(3) - Create QRcode barcode image with GD
- Barcode::UPCA(3) - Create UPC-A barcode image with GD
- Barcode::UPCE(3) - Create UPC-E barcode image with GD
- Bare(3) - Minimal XML parser implemented via a C state engine
- BAREOS(8) - Backup Archiving REcovery Open Sourced
- BAREOS-DBCHECK(8) - Bareos's Catalog Database Check/Clean program
- BAREOS-DBCOPY(8) - bareos-dbcopy
- BAREOS-DIR(8) - Bareos Director
- BAREOS-FD(8) - Bareos's File Daemon
- BAREOS-SD(8) - Bareos's Storage Daemon
- bareword::filehandles(3) - disables bareword filehandles
- BARGRAPH(1) - compile bar graphs into pic input
- BARMAN(1) - Backup and Recovery Manager for PostgreSQL
- BARMAN(5) - Backup and Recovery Manager for PostgreSQL
- BARMAN-CLOUD-BACKUP(1) - Backup a PostgreSQL instance and stores it in the Cloud
- BARMAN-CLOUD-BACKUP-DELETE(1) - Delete backups stored in the Cloud
- BARMAN-CLOUD-BACKUP-LIST(1) - List backups stored in the Cloud
- BARMAN-CLOUD-CHECK-WAL-ARCHIVE(1) - Check a WAL archive destination for a new PostgreSQL cluster
- BARMAN-CLOUD-RESTORE(1) - Restore a PostgreSQL backup from the Cloud
- BARMAN-CLOUD-WAL-ARCHIVE(1) - Archive PostgreSQL WAL files in the Cloud using archive_command
- BARMAN-CLOUD-WAL-RESTORE(1) - Restore PostgreSQL WAL files from the Cloud using restore_command
- BARMAN-WAL-ARCHIVE(1) - archive_command based on Barman's put-wal
- BARMAN-WAL-RESTORE(1) - 'restore_command' based on Barman's get-wal
- BARRIER(1) - syncronize a process on a number of machines.
- BARRIER(3PVM) - Blocks the calling process until all processes in a group have called it.
- BARRIERC(1) - Barrier Keyboard/Mouse Client
- BARRIERD(1) - syncronize a process on a number of machines.
- BARRIERS(1) - Barrier Keyboard/Mouse Server
- BASE32(1) - base32 encode/decode data and print to standard output
- BASE64(1) - base64 encode/decode data and print to standard output
- base64(n) - Encoding "base64"
- BASE64URL(1) - Base64Url encode or decode FILE, or standard input, to standard output.
- BASE91(1) - basE91 encode/decode data
- Baseball::Sabermetrics(3) - A Baseball Statistics Module
- BaseCnv(3) - basic functions to CoNVert between number Bases
- BASENAME(1) - strip directory and suffix from filenames
- BASENAME(1B) - (BSD) return non-directory portion of a pathname
- BASENAME(3) - extract the base portion of a pathname
- BASENC(1) - Encode/decode data and print to standard output
- BASH(1) - GNU Bourne-Again SHell
- Bash::Completion(3) - Extensible system to provide bash completion
- Bash::Completion::Plugin(3) - base class for Bash::Completion plugins
- Bash::Completion::Plugins::BashComplete(3) - Plugin for bash-complete
- Bash::Completion::Plugins::Perldoc(3) - complete perldoc command
- Bash::Completion::Request(3) - Abstract a completion request
- Bash::Completion::Utils(3) - Set of utility functions that help writting plugins
- BASH_BUILTINS(1) - bash built-in commands, see
- BASHBUG(1) - report a bug in bash
- BASH-COMPLETE(1) - bash-completion magic script
- bashdb(1) - bash debugger script
- BASIC(1)
- BASIC_DB_AUTH(8) - Database auth helper for Squid
- basic_getpwnam_auth(8) - Local Users auth helper for Squid
- basic_ncsa_auth(8) - NCSA httpd-style password file authentication helper for Squid
- basic_pam_auth(8) - PAM Basic authentication helper for Squid
- BASIC_POP3_AUTH(8) - POP3 authenticator for Squid
- basic_radius_auth(8) - Squid RADIUS authentication helper
- basicdsp(1) - DSP demonstration program
- BASKETLOSSES(1) - Example of Modeling Losses Across Correlated Assets
- basl2c(1B) - converts a BASL (BAtch Scheduling Language) code into a C scheduler code.
- Bastardize(3) - a corruptor of innocent text
- BASTET(6) - Tetris(r) clone with "bastard" block-choosing AI
- bastille(8) - Bastille is an open-source system for automating deployment and management of containerized applications on FreeBSD.
- BASTION(1)
- BASTION_BASTION(1)
- BASTION_BASTION_CHANGE-COMPARTMENT(1)
- BASTION_BASTION_CREATE(1)
- BASTION_BASTION_DELETE(1)
- BASTION_BASTION_GET(1)
- BASTION_BASTION_LIST(1)
- BASTION_BASTION_UPDATE(1)
- BASTION_SESSION(1)
- BASTION_SESSION_CREATE(1)
- BASTION_SESSION_CREATE-MANAGED-SSH(1)
- BASTION_SESSION_CREATE-PORT-FORWARDING(1)
- BASTION_SESSION_DELETE(1)
- BASTION_SESSION_GET(1)
- BASTION_SESSION_LIST(1)
- BASTION_SESSION_UPDATE(1)
- BASTION_WORK-REQUEST(1)
- BASTION_WORK-REQUEST_GET(1)
- BASTION_WORK-REQUEST_LIST(1)
- BASTION_WORK-REQUEST-ERROR(1)
- BASTION_WORK-REQUEST-ERROR_LIST(1)
- BASTION_WORK-REQUEST-LOG-ENTRY(1)
- BASTION_WORK-REQUEST-LOG-ENTRY_LIST-WORK-REQUEST-LOGS(1)
- BATCH_CROP(1) - crop a set of images
- BATCH_IMAGE_CONVERT(1) - use VIPS to convert a set of images to a new type
- BATCH_RUBBER_SHEET(1) - warp a set of images with a rubber-sheet transformation
- BATCHER(8) - Article batching for InterNetNews
- BATS(1) - Bash Automated Testing System
- BATS(7) - Bats test file format
- BATTLESHIP()
- BATTLESTAR(6) - a tropical adventure game
- BATTMOND(1) - monitor battery level on ACPI-enabled (laptop) computers
- batv-filter(8) - BATV (Bounce Address Tag Validation) filter for sendmail
- BAYESOL(1) - a Bayes solution calculator for use with dbacl.
- BB(nged) - Report dimensional information about objects using Bounding Boxes
- BBBIKE(1)
- BBC(1) - check on BBoards
- BBE(1) - binary block editor
- BBFTP(1) - transfer files using compression and parallel streams
- BBFTPD(1) - BBFTP protocol server
- BBKEYS(1) - a general XWindow keygrabber
- BBKEYSRC(5) - bbkeys configuration file
- bbmail(1) - mailbox flag for X
- BBOX(1) - prints out the bounding box of a rawppm or rawpbm image
- BBS::Client(3) - A Client Module For BBS Systems
- BBSAgent(3) - Scriptable telnet-based virtual users
- BBSBOARD(1) - Internet to BBS email-post handler
- BBSCOMD(1) - OurNet BBS Remote Access Daemon
- BBSMAIL(1) - Internet to BBS email-gateway handler
- BCAL(1) - Storage expression calculator.
- BCAST(3PVM) - Broadcasts the data in the active message buffer to a group of processes.
- bcc(1) - Bruce's C compiler
- BCC-CC1(1) - C compiler backend
- BCD(6) - reformat input as punch cards
- BCE(4) - QLogic NetXtreme II (BCM5706/5708/5709/5716) PCI/PCIe Gigabit Ethernet adapter driver
- BCFTOOLS(1) - utilities for variant calling and manipulating VCFs and BCFs.
- BCHUNK(1) - CD image format conversion from bin/cue to iso/cdr
- BCL(3) - library of arbitrary precision decimal arithmetic
- BCLOCK(1) - round X clock with bezier curve hands
- BCM283X_PWM(4) - bcm283x_pwm - driver for Raspberry Pi 2/3 PWM
- BCMA(4) - Broadcom AMBA Backplane driver
- BCMFW(8) - firmware download utility for Broadcom BCM2033 chip based Bluetooth USB devices
- BCMP(3) - compare byte string
- BCMXCP(8) - Driver for UPSes supporting the serial BCM/XCP protocol
- BCMXCP_USB(8) - Experimental driver for UPSes supporting the BCM/XCP protocol over USB
- BCOMPS(1) - biconnected components filter for graphs
- BCONSOLE(1) - Bareos's management Console
- BCONSOLE(8) - Bacula's management Console
- BCOPY(3) - copy byte string
- BCRELAY(8) - a broadcast relay daemon
- bcrypt(1) - blowfish file encryption
- BcVersions(3) - ByteLoader bytecode versions
- BCWIPE(1) - securely erase data from magnetic and solid-state memory
- bdeinfo - determines information about a BitLocker Drive Encrypted (BDE) volume
- bdemount - mounts a BitLocker Drive Encryption (BDE) encrypted volume
- BDES(1) - encrypt/decrypt using the Data Encryption Standard (DES)
- BDF2GDFONT(1) - Convert X11 "BDF" fonts into a loadable font format for GD.
- BDF2SFD(1) - BDF to SFD converter
- BDFRESIZE(1) - Resize BDF Format Font
- BDFTOPCF(1) - convert X font from Bitmap Distribution Format to Portable Compiled Format
- bdftruncate(1) - generate truncated BDF font from ISO 10646-1-encoded BDF font
- BDIFF(1) - big diff
- BDS(1)
- BDS_AUTO-SCALE-CONFIG(1)
- BDS_AUTO-SCALE-CONFIG_CREATE(1)
- BDS_AUTO-SCALE-CONFIG_DELETE(1)
- BDS_AUTO-SCALE-CONFIG_EDIT(1)
- BDS_AUTO-SCALE-CONFIG_GET(1)
- BDS_AUTO-SCALE-CONFIG_LIST(1)
- BDS_BDS-API-KEY(1)
- BDS_BDS-API-KEY_CREATE(1)
- BDS_BDS-API-KEY_DELETE(1)
- BDS_BDS-API-KEY_GET(1)
- BDS_BDS-API-KEY_LIST(1)
- BDS_BDS-API-KEY_TEST-BDS-OBJECT-STORAGE-CONNECTION(1)
- BDS_BDS-METASTORE-CONFIGURATION(1)
- BDS_BDS-METASTORE-CONFIGURATION_ACTIVATE(1)
- BDS_BDS-METASTORE-CONFIGURATION_CREATE(1)
- BDS_BDS-METASTORE-CONFIGURATION_DELETE(1)
- BDS_BDS-METASTORE-CONFIGURATION_GET(1)
- BDS_BDS-METASTORE-CONFIGURATION_LIST(1)
- BDS_BDS-METASTORE-CONFIGURATION_TEST(1)
- BDS_BDS-METASTORE-CONFIGURATION_UPDATE(1)
- BDS_BLOCK-STORAGE(1)
- BDS_BLOCK-STORAGE_ADD(1)
- BDS_CLOUDSQL(1)
- BDS_CLOUDSQL_ADD(1)
- BDS_CLOUDSQL_REMOVE(1)
- BDS_INSTANCE(1)
- BDS_INSTANCE_CHANGE-COMPARTMENT(1)
- BDS_INSTANCE_CHANGE-SHAPE(1)
- BDS_INSTANCE_CREATE(1)
- BDS_INSTANCE_DELETE(1)
- BDS_INSTANCE_GET(1)
- BDS_INSTANCE_INSTALL-PATCH(1)
- BDS_INSTANCE_LIST(1)
- BDS_INSTANCE_LIST-PATCHES(1)
- BDS_INSTANCE_LIST-PATCH-HISTORIES(1)
- BDS_INSTANCE_REMOVE(1)
- BDS_INSTANCE_RESTART-NODE(1)
- BDS_INSTANCE_UPDATE(1)
- BDS_INSTANCE_WORKER-NODES(1)
- BDS_INSTANCE_WORKER-NODES_ADD(1)
- BDS_WORK-REQUEST(1)
- BDS_WORK-REQUEST_GET(1)
- BDS_WORK-REQUEST_LIST(1)
- BDS_WORK-REQUEST-ERROR(1)
- BDS_WORK-REQUEST-ERROR_LIST(1)
- BDS_WORK-REQUEST-LOG-ENTRY(1)
- BDS_WORK-REQUEST-LOG-ENTRY_LIST(1)
- BDWGC(3) - Garbage collecting malloc replacement
- bdy(1gv)
- bdy(3gv)
- BEADM(1) - Utility to manage Boot Environments with ZFS
- BEADM(8) - manage boot environments with ZFS
- beam_lib(3) - An interface to the BEAM file format.
- Beanstalk::Client(3) - Client class to talk to beanstalkd server
- Beanstalk::Job(3) - Class to represent a job from a beanstalkd server
- Beanstalk::Pool(3) - Use a pool of beanstalkd servers
- Beanstalk::Stats(3) - Class to represent stats results from the beanstalk server
- BEANSTALKD(1) - simple, fast work queue
- Beanstream(3) - Beanstream backend for Business::OnlinePayment
- BEAR(1) - a tool to generate compilation database for Clang tooling.
- BEAROFFDUMP(6) - dump a position from the GNU Backgammon bearoff database
- BEASTIE.4TH(8) - FreeBSD ASCII art boot module
- BEAV(1) - binary file editor and viewer
- BECTL(8) - Utility to manage boot environments on ZFS
- BED(6) - maze editor for block
- bedup(8) - deduplication program with additional knowledge of burp
- BEEP(1) - emit tone from console speaker
- beep(n) - ring the bell
- BEET(1) - music tagger and library organizer
- BEETSCONFIG(5) - beets configuration file
- beforelight(1) - screen saver
- BEGIN(1) - start a new block of code
- BEGIN(7) - start a transaction block
- BEINSTALL.SH(8) - install a boot environment using the current FreeBSD source tree
- BELKIN(8) - Driver for Belkin serial UPS equipment
- BELKINUNV(8) - Driver for Belkin "Universal UPS" and compatible
- bell(n) - Ring a display's bell
- BEMENU(1)
- bench2graph(1) - draws Postscript graphs from Autobench output (using gnuplot)
- BENCHMARK(1) - runs the BRL-CAD benchmark
- Benchmark(3) - benchmark running times of Perl code
- Benchmark::Dumb(3) - Benchmark.pm compatibility layer for Dumbbench
- Benchmark::Stopwatch(3) - simple timing of stages of your code.
- Benchmark::Timer(3) - Benchmarking with statistical confidence
- benchmark_data(3)
- benchmark_enable(3)
- benchmark_timestamp(3)
- benchmark_tracedata(3)
- Bencode(3) - BitTorrent serialisation format
- BENQ(4) - webcamd driver for Benq DC E300 USB camera
- BerkeleyDB(3) - Perl extension for Berkeley DB version 2, 3, 4, 5 or 6
- BERMUDANSWAPTION(1) - Example of using QuantLib
- BERRY(1) - floating window manager
- BERRYC(1) - client for berry window manager
- BESSIDE-NG(8) - crack a WEP or WPA key without user intervention and collaborate with WPA cracking statistics
- BESSIDE-NG-CRAWLER(1) - filter EAPOL frames from a directory of capture files.
- BESTFCOM(8) - Driver for Best Power Fortress/Ferrups
- bestfit(1) - Optimally choose files to be put on a CD (or other media)
- bestfit_color(3) - Finds a palette color fitting the requested RGB values. Allegro game programming library.
- BESTFORTRESS(8) - Driver for old Best Fortress UPS equipment
- BESTUFERRUPS(8) - Driver for Best Power Micro-Ferrups
- BESTUPS(8) - Driver for Best Power / SOLA (Phoenixtec protocol) UPS equipment
- BEV(nged) - Performs the operations indicated in the
- Bevel(1) - if used without any other option it will have the same effect as none.
- BEXTRACT(8) - Bareos's 'Extract from volume'
- BEZ2MESH(1gv) - dices a BEZ file to a list of MESHes
- Bezier(3) - solution of Bezier Curves
- BF_COMPACT(1) - shell script to compact a bogofilter directory
- BF_COPY(1) - shell script to copy a bogofilter working directory
- BF_ENCRYPT(3) - Blowfish encryption
- BF_ENCRYPT(3ossl) - Blowfish encryption
- BF_TAR(1) - shell script to write a tar file of a bogofilter directory to stdout
- BFD(3) - Impromptu dumping of data structures for debugging purposes
- BFE(4) - Broadcom BCM4401 Ethernet Device Driver
- bfort(1) - program to extract short definitions for a Fortran to C interface
- BFS(1) - breadth-first search for your files
- BFST(1)
- BFTPD(8) - B FTP Daemon
- BG(1) - send jobs to background
- bg_test(6) - test the background mode of svgalib
- BG5CONV(1) - convert a TeX document in Big 5 encoding into `preprocessed' form.
- BGE(4) - Broadcom BCM57xx/BCM590x Gigabit/Fast Ethernet driver
- bgerror(n) - Command invoked to process background errors
- bgexec(n) - Run programs in the background while handling Tk events. kill - Terminate program or send signal.
- bggen(1) - generates colored backgrounds on X11 displays
- bg-installer(1) - Standardized installer program.
- BGPCTL(8) - control the Border Gateway Protocol daemon
- BGPD.CONF(5) - Border Gateway Protocol daemon configuration file
- BGPD(8) - a BGPv4, BGPv4+, BGPv4- routing engine for use with Quagga routing software
- BGPQ3(8) - bgp filtering automation tool
- BGPQ4(8) - bgp filtering automation tool
- BGPUMA(1)
- BGROT(1) - a program to alleviate background boredom
- BGS(1) - background setter
- bgzip(1) - Block compression/decompression utility
- bhm(8) - program to send SMTP mail to /dev/null
- BHND(4) - Broadcom Home Networking Division interconnect bus
- BHND(9) - BHND driver programming interface
- BHND_CHIPC(4) - Broadcom Home Networking Division ChipCommon Driver
- BHND_EROM(9) - BHND device enumeration table parsing
- BHND_PMU(4) - Broadcom Home Networking Division PMU Driver
- BHNDB(4) - Broadcom Home Networking Division interconnect bridge driver
- BHNDB_PCI(4) - Broadcom Home Networking Division PCI host bridge driver
- BHYVE(4) - virtual machine monitor
- BHYVE(8) - run a guest operating system inside a virtual machine
- BHYVE_CONFIG(5) - bhyve configuration variables
- BHYVECTL(8) - control utility for bhyve instances
- BHYVELOAD(8)
- BIBCLEAN(1) - prettyprint and syntax check BibTeX and Scribe bibliography data base files
- BIBCURSED(1) - manipulate BibTeX files
- BIBER(1) - A bibtex replacement for users of biblatex
- Biber(3) - main module for biber, a bibtex replacement for users of biblatex
- Biber::Annotation(3) - Biber::Annotation objects
- Biber::Config(3) - Configuration items which need to be saved across the lifetime of a Biber object
- Biber::Constants(3) - global constants for biber
- Biber::DataList(3) - Biber::DataLists objects
- Biber::DataLists(3)
- Biber::DataModel(3) - Biber::DataModel objects
- Biber::Date::Format(3) - Biber::Date::Format objects
- Biber::Entries(3) - Biber::Entries objects
- Biber::Entry(3) - Biber::Entry objects
- Biber::Entry::Name(3) - Biber::Entry::Name objects
- Biber::Entry::Names(3) - Biber::Entry::Names objects
- Biber::Input::file::biblatexml(3) - look in a BibLaTeXML file for an entry and create it if found
- Biber::Input::file::bibtex(3) - look in a BibTeX file for an entry and create it if found
- Biber::Internals(3) - Internal methods for processing the bibliographic data
- Biber::LangTag(3) - Biber::LangTag objects
- Biber::LangTags(3)
- Biber::LaTeX::Recode(3) - Encode/Decode chars to/from UTF-8/lacros in LaTeX
- Biber::Output::base(3) - base class for Biber output modules.
- Biber::Output::bbl(3) - class for Biber output of .bbl
- Biber::Output::bblxml(3) - class for Biber output of .bbl in XML format
- Biber::Output::biblatexml(3) - class for biblatexml output of tool mode
- Biber::Output::bibtex(3) - class for bibtex output
- Biber::Output::dot(3) - class for Biber output of GraphViz .dot files
- Biber::Section(3) - Biber::Section objects
- Biber::Sections(3) - Biber::Sections objects
- Biber::UCollate(3) - Biber::UCollate objects
- Biber::Utils(3) - Various utility subs used in Biber
- BIBLE(1) - Lookup words and verses in the Bible (King James version)
- BIBLESYNC(7) - multicast navigation synchronization in Bible programs
- BIBOUMI(1) - biboumi Documentation
- BIBTEX(1) - make a bibliography for (La)TeX
- BibTeX::Parser(3) - A pure perl BibTeX parser
- BibTeX::Parser::Author(3) - Contains a single author for a BibTeX document.
- BibTeX::Parser::Entry(3) - Contains a single entry of a BibTeX document.
- BIBTEX2HTML(BIB2BIB) - A translator of bibliography databases into HTML
- bibtexconv(1) - BibTeX Converter
- bibtexconv-odt(1) - ODT Helper Script for BibTeX Converter
- BIBVIEW(1) - an X based graphical user interface for manipulating BibTeX databases
- BICON(1) - a bidirectional console
- biew(1) - console hex viewer/editor and disassembler.
- BIFF(1) - be notified if mail arrives and who it is from
- BIG5(5) - “Big Five” encoding for Traditional Chinese text
- Bigarray(3) - Large, multi-dimensional, numerical arrays.
- BIGFILE(1) - kill (or signal) a process when a file grows too big
- BigIP::iControl(3) - A Perl interface to the F5 iControl API
- BigIP::ParseConfig(3) - F5/BigIP configuration parser
- Bignum(3) - OpenSSL's multiprecision integer arithmetic
- Bignum::CTX(3) - Perl interface to the OpenSSL BN_CTX structure.
- BIGTOP(1) - the parser/generater for the bigtop langauge
- Bigtop(3) - A web application data language processor
- Bigtop::Backend::CGI(3) - defines the legal keywords for cgi backends
- Bigtop::Backend::CGI::Gantry(3) - A generated server for the [% app_name %] app
- Bigtop::Backend::Conf(3) - defines the legal keywords for conf backends
- Bigtop::Backend::Conf::Gantry(3) - makes Config::Gantry conf files
- Bigtop::Backend::Conf::General(3) - makes Config::General conf files
- Bigtop::Backend::Control(3) - defines legal keywords in control blocks
- Bigtop::Backend::Control::Gantry(3) - controller generator for the Gantry framework
- Bigtop::Backend::Diagram::GraphvizSql(3) - generates dot language file for data model
- Bigtop::Backend::HttpdConf(3) - defines the legal keywords for httpd conf backends
- Bigtop::Backend::HttpdConf::Gantry(3) - httpd.conf generator for the Gantry framework
- Bigtop::Backend::Init::Std(3) - Bigtop backend which works sort of like h2xs
- Bigtop::Backend::Model(3) - defines legal keywords in table and field blocks
- Bigtop::Backend::Model::GantryCDBI(3) - model for [% table_name %] table (stub part)
- Bigtop::Backend::Model::GantryDBIxClass(3) - schema class for [% app_name +%]
- Bigtop::Backend::SiteLook::GantryDefault(3) - Bigtop to generate site appearance files
- Bigtop::Backend::SQL(3) - defines legal keywords in table and field blocks
- Bigtop::Backend::SQL::DB2(3) - backend to generate sql for DB2 database creation
- Bigtop::Backend::SQL::MySQL(3) - backend to generate sql for MySQL database creation
- Bigtop::Backend::SQL::Postgres(3) - backend to generate sql for Postgres database creation
- Bigtop::Backend::SQL::SQLite(3) - backend to generate sql for SQLite database creation
- Bigtop::Deparser(3) - given an AST, makes a corresponding bigtop source file
- Bigtop::Docs::About(3)
- Bigtop::Docs::AutoBackends(3) - lists all backends and their config statements
- Bigtop::Docs::Cookbook(3)
- Bigtop::Docs::FullKeywords(3) - Descriptions of all Bigtop keywords
- Bigtop::Docs::Modules(3) - An annotated list of modules in the Bigtop distribution
- Bigtop::Docs::QuickKeywords(3) - Short descriptions of all Bigtop keywords
- Bigtop::Docs::QuickStart(3)
- Bigtop::Docs::Syntax(3) - An introduction to Bigtop syntax description
- Bigtop::Docs::TentRef(3)
- Bigtop::Docs::TentTut(3)
- Bigtop::Docs::TOC(3) - Table of Contents for Bigtop::Docs::* documentation modules
- Bigtop::Docs::Tutorial(3)
- Bigtop::Docs::Vim(3)
- Bigtop::Grammar(3) - generated by Parse::RecDescent from bigtop.grammar
- Bigtop::Keywords(3) - A central place to describe all bigtop keywords
- Bigtop::Parser(3) - the Parse::RecDescent grammar driven parser for bigtop files
- Bigtop::ScriptHelp(3) - A helper modules for command line utilities
- Bigtop::ScriptHelp::Style(3) - Factory for scripts' command line and standard in handlers
- Bigtop::ScriptHelp::Style::Kickstart(3) - handles kickstart syntax for scripts
- Bigtop::ScriptHelp::Style::Pg8Live(3) - gets its descriptions from Postgresql
- Bigtop::TentMaker(3) - A Gantry App to Help You Code Bigtop Files
- Bigtop::TentMakerPath(3) - keeps track of where the tentmaker templates live
- bigyear(1) - print a calendar, one month per page
- bin(n) - Encoding "bin"
- bin::download-entities(3) - download and parse XML Entity definitions
- BIN_DEC_HEX(1) - How to use binary, decimal, and hexadecimal notation.
- bin2c(1)
- BIN2ECM(1) - encoder and decoder for the error code modeler format
- bin2obj(1) - The Free Pascal binary to pascal include file converter.
- BIN2REC(1) - converts biosignal data produced with rec2bin, into a gdf file. rec2bin and bin2rec are complementary functions, which can be useful to dump data, edit date and revert it back into the original format.
- binary(n) - Insert and extract fields from binary strings
- binary2ascii(1) - Convert binary numbers to textual representation
- binaryring(6) - A system of path tracing particles evolves continuously from an initial creation.
- bincimap.conf(5) - Global configuration file for
- bincimapd(1) - IMAP4rev1 server
- bincimap-up(1) - Authentication stub for Binc IMAP
- BINCLOCK(1)
- BINCOMP(1) - compare binary files
- BIND(1) - handle fish key bindings
- BIND(2) - assign a local protocol address to a socket
- Bind(3) - Bind variables to captured buffers
- bind(n) - Arrange for X events to invoke Tcl scripts
- BIND::Conf_Parser(3) - Parser class for BIND configuration files
- BIND::Config::Parser(3) - Parse BIND Config file.
- BIND_TEXTDOMAIN_CODESET(3) - set encoding of message translations
- BIND2CSV2(1) - convert zone files from BIND to MaraDNS compatible format
- BINDAT(2) - assign a local protocol address to a socket
- BINDFS(1)
- BINDRESVPORT(3) - bind a socket to a privileged IP port
- bindtags(3) - Determine which bindings apply to a window, and order of evaluation
- bindtags(n) - Determine which bindings apply to a window, and order of evaluation
- BINDTEST(1) - test bind(2) behavior on IPv6 implementation
- BINDTEXTDOMAIN(3) - set directory containing message catalogs
- BINGO(1)
- BINGO_PRINT(1) - simple script to generate PDFs containing bingo cards
- BINHEX(1) - use Convert::BinHex to encode files as BinHex
- BINKD(8) - transfer files between two Fidonet systems over TCP/IP
- BINMISCCTL(8) - manage binary image activators
- Bino(1) - a 3D video player with multi-display support.
- BINSRCH(3WN)
- BIO(3) - buffered input/output
- BIO(7) - Basic I/O abstraction
- BIO(7ossl) - Basic I/O abstraction
- Bio::Align::AlignI(3) - An interface for describing sequence alignments.
- Bio::Align::DNAStatistics(3) - Calculate some statistics for a DNA alignment
- Bio::Align::PairwiseStatistics(3) - Base statistic object for Pairwise Alignments
- Bio::Align::ProteinStatistics(3) - Calculate Protein Alignment statistics (mostly distances)
- Bio::Align::StatisticsI(3) - Calculate some statistics for an alignment
- Bio::Align::Utilities(3) - A collection of utilities regarding converting and manipulating alignment objects
- Bio::AlignIO(3) - Handler for AlignIO Formats
- Bio::AlignIO::arp(3) - ARP MSA Sequence input/output stream
- Bio::AlignIO::bl2seq(3) - bl2seq sequence input/output stream
- Bio::AlignIO::clustalw(3) - clustalw sequence input/output stream
- Bio::AlignIO::emboss(3) - Parse EMBOSS alignment output (from applications water and needle)
- Bio::AlignIO::fasta(3) - fasta MSA Sequence input/output stream
- Bio::AlignIO::Handler::GenericAlignHandler(3) - Bio::HandlerI-based generic data handler class for alignment-based data
- Bio::AlignIO::largemultifasta(3) - Largemultifasta MSA Sequence input/output stream
- Bio::AlignIO::maf(3) - Multiple Alignment Format sequence input stream
- Bio::AlignIO::mase(3) - mase sequence input/output stream
- Bio::AlignIO::mega(3) - Parse and Create MEGA format data files
- Bio::AlignIO::meme(3) - meme sequence input/output stream
- Bio::AlignIO::metafasta(3) - Metafasta MSA Sequence input/output stream
- Bio::AlignIO::msf(3) - msf sequence input/output stream
- Bio::AlignIO::nexus(3) - NEXUS format sequence input/output stream
- Bio::AlignIO::pfam(3) - pfam sequence input/output stream
- Bio::AlignIO::phylip(3) - PHYLIP format sequence input/output stream
- Bio::AlignIO::po(3) - po MSA Sequence input/output stream
- Bio::AlignIO::proda(3) - proda sequence input/output stream
- Bio::AlignIO::prodom(3) - prodom sequence input/output stream
- Bio::AlignIO::psi(3) - Read/Write PSI-BLAST profile alignment files
- Bio::AlignIO::selex(3) - selex sequence input/output stream
- Bio::AlignIO::xmfa(3) - XMFA MSA Sequence input/output stream
- Bio::AnalysisI(3) - An interface to any (local or remote) analysis tool
- Bio::AnalysisParserI(3) - Generic analysis output parser interface
- Bio::AnalysisResultI(3) - Interface for analysis result objects
- Bio::AnnotatableI(3) - the base interface an annotatable object must implement
- Bio::Annotation::AnnotationFactory(3) - Instantiates a new Bio::AnnotationI (or derived class) through a factory
- Bio::Annotation::Collection(3) - Default Perl implementation of AnnotationCollectionI
- Bio::Annotation::Comment(3) - A comment object, holding text
- Bio::Annotation::DBLink(3) - untyped links between databases
- Bio::Annotation::OntologyTerm(3) - An ontology term adapted to AnnotationI
- Bio::Annotation::Reference(3) - Specialised DBLink object for Literature References
- Bio::Annotation::Relation(3) - Relationship (pairwise) with other objects SeqI and NodeI;
- Bio::Annotation::SimpleValue(3) - A simple scalar
- Bio::Annotation::StructuredValue(3) - A scalar with embedded structured information
- Bio::Annotation::TagTree(3) - AnnotationI with tree-like hierarchal key-value relationships ('structured tags') that can be represented as simple text.
- Bio::Annotation::Target(3) - Provides an object which represents a target (ie, a similarity hit) from one object to something in another database
- Bio::Annotation::Tree(3) - Provide a tree as an annotation to a Bio::AnnotatableI object
- Bio::Annotation::TypeManager(3) - Manages types for annotation collections
- Bio::AnnotationCollectionI(3) - Interface for annotation collections
- Bio::AnnotationI(3) - Annotation interface
- Bio::ASN1::EntrezGene(3) - Regular expression-based Perl Parser for NCBI Entrez Gene.
- Bio::ASN1::EntrezGene::Indexer(3) - Indexes NCBI Sequence files.
- Bio::ASN1::Sequence(3) - Regular expression-based Perl Parser for ASN.1-formatted NCBI Sequences.
- Bio::ASN1::Sequence::Indexer(3) - Indexes NCBI Sequence files.
- Bio::Cluster(3) - BioPerl cluster modules
- Bio::Cluster::ClusterFactory(3) - Instantiates a new Bio::ClusterI (or derived class) through a factory
- Bio::Cluster::FamilyI(3) - Family Interface
- Bio::Cluster::SequenceFamily(3) - Sequence Family object
- Bio::Cluster::UniGene(3) - UniGene object
- Bio::Cluster::UniGeneI(3) - abstract interface of UniGene object
- Bio::ClusterI(3) - Cluster Interface
- Bio::ClusterIO(3) - Handler for Cluster Formats
- Bio::ClusterIO::dbsnp(3) - dbSNP input stream
- Bio::ClusterIO::unigene(3) - UniGene input stream
- Bio::CodonUsage::IO(3) - for reading and writing codon usage tables to file
- Bio::CodonUsage::Table(3) - for access to the Codon usage Database at http://www.kazusa.or.jp/codon.
- Bio::Coordinate(3) - Modules for working with biological coordinates
- Bio::Coordinate::Chain(3) - Mapping locations through a chain of coordinate mappers.
- Bio::Coordinate::Collection(3) - Noncontinuous match between two coordinate sets.
- Bio::Coordinate::ExtrapolatingPair(3) - Continuous match between two coordinate sets.
- Bio::Coordinate::GeneMapper(3) - Transformations between gene related coordinate systems.
- Bio::Coordinate::Graph(3) - Finds shortest path between nodes in a graph.
- Bio::Coordinate::MapperI(3) - Interface describing coordinate mappers.
- Bio::Coordinate::Pair(3) - Continuous match between two coordinate sets.
- Bio::Coordinate::Result(3) - Results from coordinate transformation.
- Bio::Coordinate::Result::Gap(3) - Another name for Bio::Location::Simple.
- Bio::Coordinate::Result::Match(3) - Another name for Bio::Location::Simple.
- Bio::Coordinate::ResultI(3) - Interface to identify coordinate mapper results.
- Bio::Coordinate::Utils(3) - Additional methods to create Bio::Coordinate objects.
- Bio::Das::FeatureTypeI(3) - Simple interface to Sequence Ontology feature types
- Bio::Das::Lite(3) - Perl extension for the DAS (HTTP+XML) Protocol (http://biodas.org/)
- Bio::Das::SegmentI(3) - DAS-style access to a feature database
- Bio::DasI(3) - DAS-style access to a feature database
- Bio::DB::DBFetch(3) - Database object for retrieving using the dbfetch script
- Bio::DB::EMBL(3) - Database object interface for EMBL entry retrieval
- Bio::DB::EntrezGene(3) - Database object interface to Entrez Gene
- Bio::DB::ESoap(3) - Client for the NCBI Entrez EUtilities SOAP server
- Bio::DB::ESoap::WSDL(3) - WSDL parsing for Entrez SOAP EUtilities
- Bio::DB::Failover(3) - A Bio::DB::RandomAccessI compliant class which wraps a prioritized list of DBs
- Bio::DB::Fasta(3) - Fast indexed access to fasta files
- Bio::DB::FileCache(3) - In file cache for BioSeq objects
- Bio::DB::Flat(3) - Interface for indexed flat files
- Bio::DB::Flat::BDB(3) - Interface for BioHackathon standard BDB-indexed flat file
- Bio::DB::Flat::BDB::embl(3) - embl adaptor for Open-bio standard BDB-indexed flat file
- Bio::DB::Flat::BDB::fasta(3) - fasta adaptor for Open-bio standard BDB-indexed flat file
- Bio::DB::Flat::BDB::genbank(3) - genbank adaptor for Open-bio standard BDB-indexed flat file
- Bio::DB::Flat::BDB::swiss(3) - swissprot adaptor for Open-bio standard BDB-indexed flat file
- Bio::DB::Flat::BinarySearch(3) - BinarySearch search indexing system for sequence files
- Bio::DB::GenBank(3) - Database object interface to GenBank
- Bio::DB::GenericWebAgent(3) - helper base class for parameter-based remote server access and response retrieval.
- Bio::DB::GenPept(3) - Database object interface to GenPept
- Bio::DB::GFF::Util::Binning(3) - binning utility for Bio::DB::GFF index
- Bio::DB::GFF::Util::Rearrange(3) - rearrange utility
- Bio::DB::IndexedBase(3) - Base class for modules using indexed sequence files
- Bio::DB::InMemoryCache(3) - Abstract interface for a sequence database
- Bio::DB::LocationI(3) - A RandomAccessI-like abstract interface for retrieving location data from a sequence database and returning Bio::LocationI objects
- Bio::DB::NCBIHelper(3) - A collection of routines useful for queries to NCBI databases.
- Bio::DB::Qual(3) - Fast indexed access to quality files
- Bio::DB::Query::GenBank(3) - Build a GenBank Entrez Query
- Bio::DB::Query::WebQuery(3) - Helper class for web-based sequence queryies
- Bio::DB::QueryI(3) - Object Interface to queryable sequence databases
- Bio::DB::RandomAccessI(3) - Abstract interface for a sequence database
- Bio::DB::ReferenceI(3) - A RandomAccessI-like abstract interface for retrieving Reference data from a sequence database and returning Bio::Annotation::Reference objects
- Bio::DB::Registry(3) - Access to the Open Bio Database Access registry scheme
- Bio::DB::SeqI(3) - Abstract Interface for Sequence databases
- Bio::DB::SoapEUtilities(3) - Interface to the NCBI Entrez web service *BETA*
- Bio::DB::SoapEUtilities::DocSumAdaptor(3) - Handle for Entrez SOAP DocSums
- Bio::DB::SoapEUtilities::FetchAdaptor(3) - Conversion of Entrez SOAP messages to BioPerl objects
- Bio::DB::SoapEUtilities::FetchAdaptor::seq(3) - Fetch adaptor for 'seq' efetch SOAP messages
- Bio::DB::SoapEUtilities::FetchAdaptor::species(3) - Fetch adaptor for 'taxonomy' efetch SOAP messages
- Bio::DB::SoapEUtilities::GQueryAdaptor(3) - Handle for Entrez SOAP GlobalQuery items
- Bio::DB::SoapEUtilities::LinkAdaptor(3) - Handle for Entrez SOAP LinkSets
- Bio::DB::SoapEUtilities::Result(3) - Accessor object for SoapEUtilities results
- Bio::DB::Taxonomy(3) - Access to a taxonomy database
- Bio::DB::Taxonomy::entrez(3) - Taxonomy Entrez driver
- Bio::DB::Taxonomy::flatfile(3) - Use the NCBI taxonomy from local indexed flat files
- Bio::DB::Taxonomy::greengenes(3) - Use the Greengenes taxonomy
- Bio::DB::Taxonomy::list(3) - An implementation of Bio::DB::Taxonomy that accepts lists of words to build a database
- Bio::DB::Taxonomy::silva(3) - Use the Silva taxonomy
- Bio::DB::UpdateableSeqI(3) - An interface for writing to a database of sequences.
- Bio::DB::WebDBSeqI(3) - Object Interface to generalize Web Databases for retrieving sequences
- Bio::DBLinkContainerI(3) - Abstract interface for any object wanting to use database cross references
- Bio::DescribableI(3) - interface for objects with human readable names and descriptions
- Bio::Event::EventGeneratorI(3) - This interface describes the basic event generator class.
- Bio::Event::EventHandlerI(3) - An Event Handler Interface
- Bio::Factory::AnalysisI(3) - An interface to analysis tool factory
- Bio::Factory::ApplicationFactoryI(3) - Interface class for Application Factories
- Bio::Factory::DriverFactory(3) - Base class for factory classes loading drivers
- Bio::Factory::EMBOSS(3) - EMBOSS application factory class
- Bio::Factory::FTLocationFactory(3) - A FeatureTable Location Parser
- Bio::Factory::LocationFactoryI(3) - A factory interface for generating locations from a string
- Bio::Factory::ObjectBuilderI(3) - Interface for an object builder
- Bio::Factory::ObjectFactory(3) - Instantiates a new Bio::Root::RootI (or derived class) through a factory
- Bio::Factory::ObjectFactoryI(3) - A General object creator factory
- Bio::Factory::SeqAnalysisParserFactory(3) - class capable of creating SeqAnalysisParserI compliant parsers
- Bio::Factory::SeqAnalysisParserFactoryI(3) - interface describing objects capable of creating SeqAnalysisParserI compliant parsers
- Bio::Factory::SequenceFactoryI(3) - This interface allows for generic building of sequences in factories which create sequences (like SeqIO)
- Bio::Factory::SequenceProcessorI(3) - Interface for chained sequence processing algorithms
- Bio::Factory::SequenceStreamI(3) - Interface describing the basics of a Sequence Stream.
- Bio::Factory::TreeFactoryI(3) - Factory Interface for getting and writing trees from/to a data stream
- Bio::FeatureHolderI(3) - the base interface an object with features must implement
- Bio::FeatureIO(3) - Handler for FeatureIO
- Bio::FeatureIO::bed(3) - read/write features from UCSC BED format
- Bio::FeatureIO::gff(3) - read/write GFF feature files
- Bio::FeatureIO::gtf(3) - read write features in GTF format
- Bio::FeatureIO::interpro(3) - read features from InterPro XML
- Bio::FeatureIO::ptt(3) - read/write features in PTT format
- Bio::FeatureIO::vecscreen_simple(3) - read/write features from NCBI vecscreen -f 3 output
- Bio::GFF3::LowLevel(3) - fast, low-level functions for parsing and formatting GFF3
- Bio::GFF3::LowLevel::Parser(3) - a fast, low-level gff3 parser
- Bio::GFF3::LowLevel::Parser::1_0_backcompat(3) - compatibility layer to support Bio::GFF3::LowLevel::Parser 1.0 API
- Bio::GFF3::Transform::FromFasta(3) - make gff3 for the sequences in a fasta file
- Bio::GFF3::Transform::SyncDirectives(3) - insert sync (###) directives into an existing GFF3 file. WARNING: this module does not really work in the general case, read the DESCRIPTION section below.
- Bio::Glite(3) - G-language Genome Analysis Environment REST service interface module
- Bio::Graphics(3) - Generate GD images of Bio::Seq objects
- Bio::Graphics::ConfiguratorI(3) - A sectioned map of configuration options (a map of maps), with a default section. Intended to augment existing tag->value semantics (ie. of Bio::AnnotationCollectionI) for object-representation information (eg. foreground color), and for general interface preferences (eg. image width in gbrowse).
- Bio::Graphics::DrawTransmembrane(3) - draw a cartoon of an Alpha-helical transmembrane protein.
- Bio::Graphics::Feature(3) - A simple feature object for use with Bio::Graphics::Panel
- Bio::Graphics::FeatureBase(3) - Compatibility module
- Bio::Graphics::FeatureDir(3)
- Bio::Graphics::FeatureFile(3)
- Bio::Graphics::FeatureFile::Iterator(3)
- Bio::Graphics::Glyph(3) - Base class for Bio::Graphics::Glyph objects
- Bio::Graphics::Glyph::alignment(3) - The "alignment" glyph
- Bio::Graphics::Glyph::allele_tower(3) - The "allele_tower" glyph
- Bio::Graphics::Glyph::anchored_arrow(3) - The "anchored_arrow" glyph
- Bio::Graphics::Glyph::arrow(3) - the "arrow" glyph
- Bio::Graphics::Glyph::box(3) - The "box" glyph
- Bio::Graphics::Glyph::broken_line(3) - The "broken line" glyph
- Bio::Graphics::Glyph::cds(3) - The "cds" glyph
- Bio::Graphics::Glyph::christmas_arrow(3) - The "christmas arrow" glyph
- Bio::Graphics::Glyph::crossbox(3) - The "crossbox" glyph
- Bio::Graphics::Glyph::dashed_line(3) - The "dashed line" glyph
- Bio::Graphics::Glyph::decorated_gene(3) - A GFF3-compatible gene glyph with protein decorations
- Bio::Graphics::Glyph::decorated_transcript(3) - draws processed transcript with protein decorations
- Bio::Graphics::Glyph::diamond(3) - The "diamond" glyph
- Bio::Graphics::Glyph::dna(3) - The "dna" glyph
- Bio::Graphics::Glyph::dot(3) - The "dot" glyph
- Bio::Graphics::Glyph::dumbbell(3) - A glyph that draws a "dumbbell" with the same shapes on both ends.
- Bio::Graphics::Glyph::ellipse(3) - The "ellipse" glyph
- Bio::Graphics::Glyph::ex(3) - the "ex", or "crossed box" glyph
- Bio::Graphics::Glyph::extending_arrow(3)
- Bio::Graphics::Glyph::Factory(3) - Factory for Bio::Graphics::Glyph objects
- Bio::Graphics::Glyph::fb_shmiggle(3)
- Bio::Graphics::Glyph::fixedwidth(3) - A base class fixed width glyphs
- Bio::Graphics::Glyph::flag(3) - the "flag" glyph
- Bio::Graphics::Glyph::gene(3) - A GFF3-compatible gene glyph
- Bio::Graphics::Glyph::generic(3) - The "generic" glyph
- Bio::Graphics::Glyph::graded_segments(3) - The "graded_segments" glyph
- Bio::Graphics::Glyph::group(3) - The "group" glyph
- Bio::Graphics::Glyph::hat(3) - The "hat" glyph
- Bio::Graphics::Glyph::heat_map(3) - The "heat_map" glyph
- Bio::Graphics::Glyph::heat_map_ideogram(3) - The "heat_map_ideogram" glyph
- Bio::Graphics::Glyph::heterogeneous_segments(3) - The "heterogeneous_segments" glyph
- Bio::Graphics::Glyph::hidden(3) - The "hidden" glyph
- Bio::Graphics::Glyph::hybrid_plot(3) - An xyplot plot drawing dual graph using data from two or more wiggle files per track
- Bio::Graphics::Glyph::ideogram(3) - The "ideogram" glyph
- Bio::Graphics::Glyph::image(3) - A glyph that draws photographs & other images
- Bio::Graphics::Glyph::lightning(3) - The "lightning" glyph
- Bio::Graphics::Glyph::line(3) - The "line" glyph
- Bio::Graphics::Glyph::merge_parts(3) - a base class which suppors semantic zooming of scored alignment features
- Bio::Graphics::Glyph::merged_alignment(3) - The "merged_alignment" glyph
- Bio::Graphics::Glyph::minmax(3) - The minmax glyph
- Bio::Graphics::Glyph::operon(3) - The "polycistronic operon" glyph
- Bio::Graphics::Glyph::oval(3) - The "oval" glyph
- Bio::Graphics::Glyph::pairplot(3) - The "pairwise plot" glyph
- Bio::Graphics::Glyph::pentagram(3) - The "pentagram" glyph
- Bio::Graphics::Glyph::phylo_align(3) - The "phylogenetic alignment" glyph
- Bio::Graphics::Glyph::pinsertion(3) - The "Drosophila P-element Insertion" glyph
- Bio::Graphics::Glyph::primers(3) - The "STS primers" glyph
- Bio::Graphics::Glyph::processed_transcript(3) - The sequence ontology transcript glyph
- Bio::Graphics::Glyph::protein(3) - The "protein" glyph
- Bio::Graphics::Glyph::ragged_ends(3) - The "ragged ends" glyph
- Bio::Graphics::Glyph::rainbow_gene(3) - A GFF3-compatible gene glyph
- Bio::Graphics::Glyph::redgreen_box(3) - The "redgreen_box" glyph
- Bio::Graphics::Glyph::redgreen_segment(3) - The "redgreen_segments" glyph
- Bio::Graphics::Glyph::repeating_shape(3) - A glyph that draws the same shape repeatedly.
- Bio::Graphics::Glyph::rndrect(3) - The "round rect" glyph
- Bio::Graphics::Glyph::ruler_arrow(3) - glyph for drawing an arrow as ruler (5' and 3' are marked as label)
- Bio::Graphics::Glyph::saw_teeth(3) - The "saw teeth" glyph
- Bio::Graphics::Glyph::scale(3) - The "scale" glyph
- Bio::Graphics::Glyph::segmented_keyglyph(3) - The "segmented_keyglyph" glyph
- Bio::Graphics::Glyph::segments(3) - The "segments" glyph
- Bio::Graphics::Glyph::so_transcript(3) - The sequence ontology transcript glyph
- Bio::Graphics::Glyph::span(3) - The "span" glyph
- Bio::Graphics::Glyph::spectrogram(3) - The "spectrogram" glyph
- Bio::Graphics::Glyph::splice_site(3) - The "splice_site" glyph
- Bio::Graphics::Glyph::stackedplot(3) - The stackedplot glyph
- Bio::Graphics::Glyph::ternary_plot(3) - Draw ternary plot data
- Bio::Graphics::Glyph::text_in_box(3) - The "text in box" glyph
- Bio::Graphics::Glyph::three_letters(3) - DAS-compatible package to use for drawing a line of groups of three letters
- Bio::Graphics::Glyph::tic_tac_toe(3) - The "tic-tac-toe" glyph
- Bio::Graphics::Glyph::toomany(3) - The "too many to show" glyph
- Bio::Graphics::Glyph::trace(3) - A glyph that visualizes a trace file
- Bio::Graphics::Glyph::track(3) - The "track" glyph
- Bio::Graphics::Glyph::transcript(3) - The "transcript" glyph
- Bio::Graphics::Glyph::transcript2(3) - The "transcript2" glyph
- Bio::Graphics::Glyph::translation(3) - The "6-frame translation" glyph
- Bio::Graphics::Glyph::triangle(3) - The "triangle" glyph
- Bio::Graphics::Glyph::two_bolts(3) - The "two bolts" glyph
- Bio::Graphics::Glyph::vista_plot(3) - The "vista_plot" glyph
- Bio::Graphics::Glyph::wave(3) - The "wave" glyph
- Bio::Graphics::Glyph::weighted_arrow(3) - The "weighted arrow" glyph
- Bio::Graphics::Glyph::whiskerplot(3) - The whiskerplot glyph
- Bio::Graphics::Glyph::wiggle_box(3) - A generic box glyph compatible with dense "wig"data
- Bio::Graphics::Glyph::wiggle_density(3) - A density plot compatible with dense "wig"data
- Bio::Graphics::Glyph::wiggle_xyplot(3) - An xyplot plot compatible with dense "wig"data
- Bio::Graphics::Glyph::xyplot(3) - The xyplot glyph
- Bio::Graphics::Panel(3) - Generate GD images of Bio::Seq objects
- Bio::Graphics::Pictogram(3) - generate SVG output of Pictogram display for consensus motifs
- Bio::Graphics::RendererI(3) - A renderer for the Bio::Graphics class that renders Bio::SeqFeature::CollectionI objects onto Bio::Graphics::Panels using configuration information provided by a Bio::Graphics::ConfiguratorI.
- Bio::Graphics::Util(3) - non-object-oriented utilities used in Bio::Graphics modules
- Bio::Graphics::Wiggle(3)
- Bio::Graphics::Wiggle::Loader(3)
- Bio::HandlerBaseI(3) - Interface class for handler methods which interact with any event-driven parsers (drivers).
- Bio::IdCollectionI(3) - interface for objects with multiple identifiers
- Bio::IdentifiableI(3) - interface for objects with identifiers
- Bio::Index::Abstract(3) - Abstract interface for indexing a flat file
- Bio::Index::AbstractSeq(3) - base class for AbstractSeq
- Bio::Index::Blast(3) - Indexes Blast reports and supports retrieval based on query accession(s)
- Bio::Index::BlastTable(3) - Indexes tabular Blast reports (-m 8 or -m 9 format) and supports retrieval based on query accession(s)
- Bio::Index::EMBL(3) - Interface for indexing (multiple) EMBL/Swissprot .dat files (i.e. flat file EMBL/Swissprot format).
- Bio::Index::Fasta(3) - Interface for indexing (multiple) fasta files
- Bio::Index::Fastq(3) - Interface for indexing (multiple) fastq files
- Bio::Index::GenBank(3) - Interface for indexing one or more GenBank files (i.e. flat file GenBank format).
- Bio::Index::Qual(3) - Interface for indexing (multiple) fasta qual files
- Bio::Index::SwissPfam(3) - Interface for indexing swisspfam files
- Bio::Index::Swissprot(3) - Interface for indexing one or more Swissprot files.
- Bio::LocatableSeq(3) - A Bio::PrimarySeq object with start/end points on it that can be projected into a MSA or have coordinates relative to another seq.
- Bio::Location::Atomic(3) - Implementation of a Atomic Location on a Sequence
- Bio::Location::AvWithinCoordPolicy(3) - class implementing Bio::Location::CoordinatePolicy as the average for WITHIN and the widest possible and reasonable range otherwise
- Bio::Location::CoordinatePolicyI(3) - Abstract interface for objects implementing a certain policy of computing integer-valued coordinates of a Location
- Bio::Location::Fuzzy(3) - Implementation of a Location on a Sequence which has unclear start and/or end locations
- Bio::Location::FuzzyLocationI(3) - Abstract interface of a Location on a Sequence which has unclear start/end location
- Bio::Location::NarrowestCoordPolicy(3) - class implementing Bio::Location::CoordinatePolicy as the narrowest possible and reasonable range
- Bio::Location::Simple(3) - Implementation of a Simple Location on a Sequence
- Bio::Location::Split(3) - Implementation of a Location on a Sequence which has multiple locations (start/end points)
- Bio::Location::SplitLocationI(3) - Abstract interface of a Location on a Sequence which has multiple locations (start/end points)
- Bio::Location::WidestCoordPolicy(3) - class implementing Bio::Location::CoordinatePolicy as the widest possible and reasonable range
- Bio::LocationI(3) - Abstract interface of a Location on a Sequence
- Bio::MAGETAB(3) - A data model and utility API for the MAGE-TAB format.
- Bio::MAGETAB::ArrayDesign(3) - MAGE-TAB array design class
- Bio::MAGETAB::Assay(3) - MAGE-TAB assay class
- Bio::MAGETAB::BaseClass(3) - Abstract base class for all MAGE-TAB classes.
- Bio::MAGETAB::Comment(3) - MAGE-TAB user-defined comment class
- Bio::MAGETAB::CompositeElement(3) - MAGE-TAB composite element class
- Bio::MAGETAB::Contact(3) - MAGE-TAB contact class
- Bio::MAGETAB::ControlledTerm(3) - MAGE-TAB controlled term class
- Bio::MAGETAB::Data(3) - Abstract data class
- Bio::MAGETAB::DataAcquisition(3) - MAGE-TAB data acquisition class
- Bio::MAGETAB::DatabaseEntry(3) - MAGE-TAB database entry class
- Bio::MAGETAB::DataFile(3) - MAGE-TAB data file class
- Bio::MAGETAB::DataMatrix(3) - MAGE-TAB data matrix class
- Bio::MAGETAB::DesignElement(3) - Abstract design element class
- Bio::MAGETAB::Edge(3) - MAGE-TAB edge class
- Bio::MAGETAB::Event(3) - Abstract event class
- Bio::MAGETAB::Extract(3) - MAGE-TAB extract class
- Bio::MAGETAB::Factor(3) - MAGE-TAB experimental factor class
- Bio::MAGETAB::FactorValue(3) - MAGE-TAB experimental factor class
- Bio::MAGETAB::Feature(3) - MAGE-TAB feature class
- Bio::MAGETAB::Investigation(3) - MAGE-TAB investigation class
- Bio::MAGETAB::LabeledExtract(3) - MAGE-TAB labeled extract class
- Bio::MAGETAB::Material(3) - Abstract material class
- Bio::MAGETAB::MatrixColumn(3) - MAGE-TAB matrix column class
- Bio::MAGETAB::MatrixRow(3) - MAGE-TAB matrix row class
- Bio::MAGETAB::Measurement(3) - MAGE-TAB measurement class
- Bio::MAGETAB::Node(3) - Abstract node class
- Bio::MAGETAB::Normalization(3) - MAGE-TAB data acquisition class
- Bio::MAGETAB::ParameterValue(3) - MAGE-TAB parameter value class
- Bio::MAGETAB::Protocol(3) - MAGE-TAB protocol class
- Bio::MAGETAB::ProtocolApplication(3) - MAGE-TAB protocol application class
- Bio::MAGETAB::ProtocolParameter(3) - MAGE-TAB protocol parameter class
- Bio::MAGETAB::Publication(3) - MAGE-TAB publication class
- Bio::MAGETAB::Reporter(3) - MAGE-TAB reporter class
- Bio::MAGETAB::Sample(3) - MAGE-TAB sample class
- Bio::MAGETAB::SDRF(3) - MAGE-TAB SDRF class
- Bio::MAGETAB::SDRFRow(3) - MAGE-TAB SDRF row class
- Bio::MAGETAB::Source(3) - MAGE-TAB source class
- Bio::MAGETAB::TermSource(3) - MAGE-TAB term source class
- Bio::MAGETAB::Types(3) - custom data types for Bio::MAGETAB
- Bio::MAGETAB::Util::Builder(3) - A storage class used to track Bio::MAGETAB object creation.
- Bio::MAGETAB::Util::DBLoader(3) - A persistent storage class used to track Bio::MAGETAB object creation and insertion into a relational database.
- Bio::MAGETAB::Util::Persistence(3) - A Tangram-based object persistence class for MAGE-TAB.
- Bio::MAGETAB::Util::Reader(3) - A parser/validator for MAGE-TAB documents.
- Bio::MAGETAB::Util::Reader::ADF(3) - ADF parser class.
- Bio::MAGETAB::Util::Reader::DataMatrix(3) - Data matrix parser class.
- Bio::MAGETAB::Util::Reader::IDF(3) - IDF parser class.
- Bio::MAGETAB::Util::Reader::SDRF(3) - SDRF parser class.
- Bio::MAGETAB::Util::Reader::Tabfile(3) - An abstract class providing methods for handling tab-delimited files.
- Bio::MAGETAB::Util::Reader::TagValueFile(3) - An abstract class providing methods for handling tab-delimited files.
- Bio::MAGETAB::Util::RewriteAE(3) - A utility class providing methods to correct some common errors in ArrayExpress MAGE-TAB documents.
- Bio::MAGETAB::Util::Writer(3) - Export of MAGE-TAB objects.
- Bio::MAGETAB::Util::Writer::ADF(3) - Export of MAGE-TAB ArrayDesign objects.
- Bio::MAGETAB::Util::Writer::GraphViz(3) - Visualization of MAGE-TAB objects.
- Bio::MAGETAB::Util::Writer::IDF(3) - Export of MAGE-TAB Investigation objects.
- Bio::MAGETAB::Util::Writer::SDRF(3) - Export of MAGE-TAB SDRF objects.
- Bio::MAGETAB::Util::Writer::Tabfile(3) - Abstract MAGE-TAB exporter class.
- Bio::Matrix::Generic(3) - A generic matrix implementation
- Bio::Matrix::IO(3) - A factory for Matrix parsing
- Bio::Matrix::IO::mlagan(3) - A parser for the mlagan substitution matrix
- Bio::Matrix::IO::phylip(3) - A parser for PHYLIP distance matricies
- Bio::Matrix::IO::scoring(3) - A parser for PAM/BLOSUM matricies
- Bio::Matrix::MatrixI(3) - An interface for describing a Matrix
- Bio::Matrix::Mlagan(3) - A generic matrix with mlagan fields
- Bio::Matrix::PhylipDist(3) - A Phylip Distance Matrix object
- Bio::Matrix::PSM::InstanceSite(3) - A PSM site occurrence
- Bio::Matrix::PSM::InstanceSiteI(3) - InstanceSite interface, holds an instance of a PSM
- Bio::Matrix::PSM::IO(3) - PSM parser
- Bio::Matrix::PSM::IO::mast(3) - PSM mast parser implementation
- Bio::Matrix::PSM::IO::masta(3) - motif fasta format parser
- Bio::Matrix::PSM::IO::meme(3) - PSM meme parser implementation
- Bio::Matrix::PSM::IO::psiblast(3) - PSM psiblast parser
- Bio::Matrix::PSM::IO::transfac(3) - PSM transfac parser
- Bio::Matrix::PSM::ProtMatrix(3) - SiteMatrixI implementation, holds a position scoring matrix (or position weight matrix) with log-odds scoring information.
- Bio::Matrix::PSM::ProtPsm(3) - handle combination of site matricies
- Bio::Matrix::PSM::Psm(3) - handle combination of site matricies
- Bio::Matrix::PSM::PsmHeader(3) - PSM mast parser implementation
- Bio::Matrix::PSM::PsmHeaderI(3) - handles the header data from a PSM file
- Bio::Matrix::PSM::PsmI(3) - abstract interface to handler of site matricies
- Bio::Matrix::PSM::SiteMatrix(3) - SiteMatrixI implementation, holds a position scoring matrix (or position weight matrix) and log-odds
- Bio::Matrix::PSM::SiteMatrixI(3) - SiteMatrixI implementation, holds a position scoring matrix (or position weight matrix) and log-odds
- Bio::Matrix::Scoring(3) - Object which can hold scoring matrix information
- Bio::NEXUS(3) - An object-oriented Perl Applications Programming Interface (API) for the NEXUS file format
- Bio::NEXUS::AssumptionsBlock(3) - Represents ASSUMPTIONS block of a NEXUS file
- Bio::NEXUS::Block(3) - Provides useful functions for blocks in NEXUS file (parent class).
- Bio::NEXUS::CharactersBlock(3) - Represents a CHARACTERS Block (Data or Characters) of a NEXUS file
- Bio::NEXUS::CodonsBlock(3) - Represents CODONS block in NEXUS file
- Bio::NEXUS::DataBlock(3) - Represents the deprecated DATA Block in NEXUS file.
- Bio::NEXUS::DistancesBlock(3) - Represents DISTANCES block in NEXUS file
- Bio::NEXUS::Functions(3) - Provides private utiliy functions for the module
- Bio::NEXUS::HistoryBlock(3) - Represents a HISTORY block of a NEXUS file
- Bio::NEXUS::Matrix(3) - Provides functions for handling blocks that have matrices
- Bio::NEXUS::NHXCmd(3) - Provides functions for manipulating nodes in trees
- Bio::NEXUS::Node(3) - Provides functions for manipulating nodes in trees
- Bio::NEXUS::NotesBlock(3) - Represents a NOTES block in a NEXUS file.
- Bio::NEXUS::SetsBlock(3) - Represents SETS block of a NEXUS file
- Bio::NEXUS::SpanBlock(3) - Represent SPAN block in a NEXUS file (contains meta data).
- Bio::NEXUS::TaxaBlock(3) - Represents TAXA block of a NEXUS file
- Bio::NEXUS::TaxUnit(3) - Represents a taxon unit in a NEXUS file
- Bio::NEXUS::TaxUnitSet(3) - Represents a sets of OTUS (Bio::NEXUS::TaxUnits objects) in a NEXUS file
- Bio::NEXUS::Tools::GraphicsParams(3) - represents a character block (Data or Characters) of a NEXUS file
- Bio::NEXUS::Tools::NexModifier(3) - NEXUS file content modifier ( exclude/select/rename options on OTUs).
- Bio::NEXUS::Tools::NexPlotter(3) - PostScript plot of tree + data table (from NEXUS infile)
- Bio::NEXUS::Tree(3) - Provides functions for manipulating trees
- Bio::NEXUS::TreesBlock(3) - Represents TREES block of a NEXUS file
- Bio::NEXUS::UnalignedBlock(3) - Represents an UNALIGNED block of a NEXUS file
- Bio::NEXUS::UnknownBlock(3) - Represents a simple object for storing information unrecognized blocks by the Bio::NEXUS module.
- Bio::NEXUS::Util::Exceptions(3) - Exception classes for Bio::NEXUS.
- Bio::NEXUS::Util::Logger(3) - Logging for Bio::NEXUS.
- Bio::NEXUS::WeightSet(3) - Represents column weights in alignment ( for each character)
- Bio::Ontology::DocumentRegistry(3) - Keep track of where to find ontologies. Allows lookups by name.
- Bio::Ontology::GOterm(3) - representation of GO terms
- Bio::Ontology::InterProTerm(3) - Implementation of InterProI term interface
- Bio::Ontology::OBOEngine(3) - An Ontology Engine for OBO style flat file format from the Gene Ontology Consortium
- Bio::Ontology::OBOterm(3) - representation of OBO terms
- Bio::Ontology::Ontology(3) - standard implementation of an Ontology
- Bio::Ontology::OntologyEngineI(3) - Interface a minimal Ontology implementation should satisfy
- Bio::Ontology::OntologyI(3) - Interface for an ontology implementation
- Bio::Ontology::OntologyStore(3) - A repository of ontologies
- Bio::Ontology::Path(3) - a path for an ontology term graph
- Bio::Ontology::PathI(3) - Interface for a path between ontology terms
- Bio::Ontology::Relationship(3) - a relationship for an ontology
- Bio::Ontology::RelationshipFactory(3) - Instantiates a new Bio::Ontology::RelationshipI (or derived class) through a factory
- Bio::Ontology::RelationshipI(3) - Interface for a relationship between ontology terms
- Bio::Ontology::RelationshipType(3) - a relationship type for an ontology
- Bio::Ontology::SimpleGOEngine::GraphAdaptor(3) - Graph adaptor for Bio::Ontology::SimpleGOEngine
- Bio::Ontology::SimpleOntologyEngine(3) - Implementation of OntologyEngineI interface
- Bio::Ontology::Term(3) - implementation of the interface for ontology terms
- Bio::Ontology::TermFactory(3) - Instantiates a new Bio::Ontology::TermI (or derived class) through a factory
- Bio::Ontology::TermI(3) - interface for ontology terms
- Bio::OntologyIO(3) - Parser factory for Ontology formats
- Bio::OntologyIO::dagflat(3) - a base class parser for GO flat-file type formats
- Bio::OntologyIO::goflat(3) - a parser for the Gene Ontology flat-file format
- Bio::OntologyIO::Handlers::BaseSAXHandler(3) - base class for SAX Handlers
- Bio::OntologyIO::Handlers::InterPro_BioSQL_Handler(3) - parse an InterPro XML file and persist the resulting terms to a Biosql database
- Bio::OntologyIO::Handlers::InterProHandler(3) - XML handler class for InterProParser
- Bio::OntologyIO::InterProParser(3) - Parser for InterPro xml files.
- Bio::OntologyIO::obo(3) - parser for OBO flat-file format
- Bio::OntologyIO::simplehierarchy(3) - a base class parser for simple hierarchy-by-indentation type formats
- Bio::OntologyIO::soflat(3) - a parser for the Sequence Ontology flat-file format
- Bio::ParameterBaseI(3) - Simple interface class for any parameter-related data such as IDs, database name, program arguments, and other odds and ends.
- Bio::Phylo(3) - Phylogenetic analysis using perl
- Bio::Phylo::EvolutionaryModels(3) - Evolutionary models for phylogenetic trees and methods to sample these Klaas Hartmann, September 2007
- Bio::Phylo::Factory(3) - Creator of objects, reduces hardcoded class names in code
- Bio::Phylo::Forest(3) - Container for tree objects
- Bio::Phylo::Forest::DrawNodeRole(3) - Tree node with extra methods for tree drawing
- Bio::Phylo::Forest::DrawTreeRole(3) - Tree with extra methods for tree drawing
- Bio::Phylo::Forest::Node(3) - Node in a phylogenetic tree
- Bio::Phylo::Forest::NodeRole(3) - Extra behaviours for a node in a phylogenetic tree
- Bio::Phylo::Forest::Tree(3) - Phylogenetic tree
- Bio::Phylo::Forest::TreeRole(3) - Extra behaviours for a phylogenetic tree
- Bio::Phylo::Generator(3) - Generator of tree topologies
- Bio::Phylo::Identifiable(3) - Objects with unique identifiers
- Bio::Phylo::IO(3) - Front end for parsers and serializers
- Bio::Phylo::Listable(3) - List of things, super class for many objects
- Bio::Phylo::ListableRole(3) - Extra functionality for things that are lists
- Bio::Phylo::Manual(3) - High-level user guide
- Bio::Phylo::Matrices(3) - Container of matrix objects
- Bio::Phylo::Matrices::Character(3) - A character (column) in a matrix
- Bio::Phylo::Matrices::Characters(3) - Container of character objects
- Bio::Phylo::Matrices::Datatype(3) - Validator of character state data
- Bio::Phylo::Matrices::Datatype::Continuous(3) - Validator subclass, no serviceable parts inside
- Bio::Phylo::Matrices::Datatype::Custom(3) - Validator subclass, no serviceable parts inside
- Bio::Phylo::Matrices::Datatype::Dna(3) - Validator subclass, no serviceable parts inside
- Bio::Phylo::Matrices::Datatype::Illumina(3) - Validator subclass, no serviceable parts inside
- Bio::Phylo::Matrices::Datatype::Mixed(3) - Validator subclass, no serviceable parts inside
- Bio::Phylo::Matrices::Datatype::Protein(3) - Validator subclass, no serviceable parts inside
- Bio::Phylo::Matrices::Datatype::Restriction(3) - Validator subclass, no serviceable parts inside
- Bio::Phylo::Matrices::Datatype::Rna(3) - Validator subclass, no serviceable parts inside
- Bio::Phylo::Matrices::Datatype::Sanger(3) - Validator subclass, no serviceable parts inside
- Bio::Phylo::Matrices::Datatype::Solexa(3) - Validator subclass, no serviceable parts inside
- Bio::Phylo::Matrices::Datatype::Standard(3) - Validator subclass, no serviceable parts inside
- Bio::Phylo::Matrices::Datum(3) - Character state sequence
- Bio::Phylo::Matrices::DatumRole(3) - Extra behaviours for a character state sequence
- Bio::Phylo::Matrices::Matrix(3) - Character state matrix
- Bio::Phylo::Matrices::MatrixRole(3) - Extra behaviours for a character state matrix
- Bio::Phylo::Matrices::TypeSafeData(3) - Superclass for objects that contain character data
- Bio::Phylo::Mediators::TaxaMediator(3) - Mediator for links between taxa and other objects
- Bio::Phylo::Models::Substitution::Binary(3) - Binary character substitution model
- Bio::Phylo::Models::Substitution::Dna(3) - DNA substitution model
- Bio::Phylo::Models::Substitution::Dna::F81(3) - Felsenstein (1981) model
- Bio::Phylo::Models::Substitution::Dna::GTR(3) - General Time Reversible model
- Bio::Phylo::Models::Substitution::Dna::HKY85(3) - Hasegawa, Kishino, Yano (1985) model
- Bio::Phylo::Models::Substitution::Dna::JC69(3) - Jukes, Cantor (1969)
- Bio::Phylo::Models::Substitution::Dna::K80(3) - Kimura 2-parameter
- Bio::Phylo::NeXML::DOM(3) - XML DOM support for Bio::Phylo
- Bio::Phylo::NeXML::DOM::Document(3) - XML DOM Abstract class for flexible document object model implementation
- Bio::Phylo::NeXML::DOM::Document::Libxml(3) - XML DOM document mappings to the "XML::LibXML" package
- Bio::Phylo::NeXML::DOM::Document::Twig(3) - XML DOM document mappings to the "XML::Twig" package
- Bio::Phylo::NeXML::DOM::Element(3) - XML DOM Abstract class for flexible document object model implementation
- Bio::Phylo::NeXML::DOM::Element::Libxml(3) - XML DOM element mappings to the "XML::LibXML" package
- Bio::Phylo::NeXML::DOM::Element::Twig(3) - XML DOM mappings to the XML::Twig package
- Bio::Phylo::NeXML::Entities(3) - Functions for dealing with XML entities
- Bio::Phylo::NeXML::Meta(3) - Single predicate/object annotation, attached to an xml-writable subject
- Bio::Phylo::NeXML::Meta::XMLLiteral(3) - Annotation value adaptor, no direct usage
- Bio::Phylo::NeXML::Writable(3) - Superclass for objects that serialize to NeXML
- Bio::Phylo::NeXML::XML2JSON(3) - Helps convert NeXML to JSON, no serviceable parts inside
- Bio::Phylo::Parsers::Abstract(3) - Superclass for parsers used by Bio::Phylo::IO
- Bio::Phylo::Parsers::Adjacency(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Cdao(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Dwca(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Fasta(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Fastq(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Figtree(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Json(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Newick(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Nexml(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Nexus(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Nhx(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Phylip(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Phyloxml(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Table(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Taxlist(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Tnrs(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Tolweb(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Ubiocbmeta(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Ubiometa(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Ubiosearch(3) - Parser used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::PhyloWS(3) - Base class for phylogenetic web services
- Bio::Phylo::PhyloWS::Client(3) - Base class for phylogenetic web service clients
- Bio::Phylo::PhyloWS::Resource(3) - Represents a PhyloWS web resource
- Bio::Phylo::PhyloWS::Resource::Description(3) - Represents a PhyloWS resource description
- Bio::Phylo::PhyloWS::Service(3) - Base class for phylogenetic web services
- Bio::Phylo::PhyloWS::Service::Timetree(3) - PhyloWS service wrapper for Timetree
- Bio::Phylo::PhyloWS::Service::Tolweb(3) - PhyloWS service wrapper for Tree of Life
- Bio::Phylo::PhyloWS::Service::UbioClassificationBank(3) - PhyloWS service wrapper for uBio ClassificationBank records
- Bio::Phylo::PhyloWS::Service::UbioNameBank(3) - PhyloWS service wrapper for uBio NameBank records
- Bio::Phylo::Project(3) - Container for related data
- Bio::Phylo::Set(3) - Subset of the parts inside a container
- Bio::Phylo::Taxa(3) - Container of taxon objects
- Bio::Phylo::Taxa::TaxaLinker(3) - Superclass for objects that link to taxa objects
- Bio::Phylo::Taxa::Taxon(3) - Operational taxonomic unit
- Bio::Phylo::Taxa::TaxonLinker(3) - Superclass for objects that link to taxon objects
- Bio::Phylo::Treedrawer(3) - Visualizer of tree shapes
- Bio::Phylo::Treedrawer::Abstract(3) - Abstract graphics writer used by treedrawer, no serviceable parts inside
- Bio::Phylo::Treedrawer::Canvas(3) - Graphics format writer used by treedrawer, no serviceable parts inside
- Bio::Phylo::Treedrawer::Gif(3) - Graphics format writer used by treedrawer, no serviceable parts inside
- Bio::Phylo::Treedrawer::Jpeg(3) - Graphics format writer used by treedrawer, no serviceable parts inside
- Bio::Phylo::Treedrawer::Pdf(3) - Graphics format writer used by treedrawer, no serviceable parts inside
- Bio::Phylo::Treedrawer::Png(3) - Graphics format writer used by treedrawer, no serviceable parts inside
- Bio::Phylo::Treedrawer::Processing(3) - Graphics format writer used by treedrawer, no serviceable parts inside
- Bio::Phylo::Treedrawer::Svg(3) - Graphics format writer used by treedrawer, no serviceable parts inside
- Bio::Phylo::Treedrawer::Swf(3) - Graphics format writer used by treedrawer, no serviceable parts inside
- Bio::Phylo::Unparsers::Abstract(3) - Superclass for unparsers used by Bio::Phylo::IO
- Bio::Phylo::Unparsers::Adjacency(3) - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Unparsers::Cdao(3) - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Unparsers::Fasta(3) - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Unparsers::Figtree(3) - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Unparsers::Hennig86(3) - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Unparsers::Html(3) - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Unparsers::Json(3) - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Unparsers::Mrp(3) - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Unparsers::Newick(3) - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Unparsers::Nexml(3) - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Unparsers::Nexus(3) - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Unparsers::Nhx(3) - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Unparsers::Nwmsrdf(3) - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Unparsers::Pagel(3) - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Unparsers::Phylip(3) - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Unparsers::Phyloxml(3) - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Unparsers::Rss1(3) - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Unparsers::Taxlist(3) - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Util::CONSTANT(3) - Global constants and utility functions
- Bio::Phylo::Util::CONSTANT::Int(3) - Integer constants, no serviceable parts inside
- Bio::Phylo::Util::Dependency(3) - Utility class for importing external dependencies. No serviceable parts inside.
- Bio::Phylo::Util::Exceptions(3) - Errors ($@) that are objects
- Bio::Phylo::Util::IDPool(3) - Utility class for generating object IDs. No serviceable parts inside.
- Bio::Phylo::Util::Logger(3) - Logger of internal messages of several severity levels
- Bio::Phylo::Util::Math(3) - Utility math functions
- Bio::Phylo::Util::MOP(3) - Meta-object programming, no serviceable parts inside
- Bio::Phylo::Util::OptionalInterface(3) - Utility class for managing optional superclasses. No serviceable parts inside.
- Bio::Phylo::Util::StackTrace(3) - Stack traces for exceptions
- Bio::PhyloRole(3) - Extra behaviours for the base class
- Bio::PrimarySeq(3) - Bioperl lightweight sequence object
- Bio::PrimarySeqI(3) - Interface definition for a Bio::PrimarySeq
- Bio::PullParserI(3) - A base module for fast 'pull' parsing
- Bio::Range(3) - Pure perl RangeI implementation
- Bio::RangeI(3) - Range interface
- Bio::Root::Exception(3) - BioPerl exceptions
- Bio::Root::HTTPget(3) - module for fallback HTTP get operations when LWP:: is unavailable
- Bio::Root::IO(3) - BioPerl base IO handling class
- Bio::Root::Root(3) - implementation of Bio::Root::RootI interface
- Bio::Root::RootI(3) - base interface for all BioPerl classes
- Bio::Root::Storable(3) - Safely store/retrieve objects from disk
- Bio::Root::Test(3) - common base for all BioPerl test scripts
- Bio::Root::TestObject(3) - An implementation of TestInterface
- Bio::Root::Utilities(3) - general-purpose utilities
- Bio::Root::Version(3) - don't use, get version from each module
- Bio::Search::BlastStatistics(3) - An object for Blast statistics
- Bio::Search::BlastUtils(3) - Utility functions for Bio::Search:: BLAST objects
- Bio::Search::DatabaseI(3) - Interface for a database used in a sequence search
- Bio::Search::GenericDatabase(3) - Generic implementation of Bio::Search::DatabaseI
- Bio::Search::GenericStatistics(3) - An object for statistics
- Bio::Search::Hit::BlastHit(3) - Blast-specific subclass of Bio::Search::Hit::GenericHit
- Bio::Search::Hit::BlastPullHit(3) - A parser and hit object for BLASTN hits
- Bio::Search::Hit::Fasta(3) - Hit object specific for Fasta-generated hits
- Bio::Search::Hit::GenericHit(3) - A generic implementation of the Bio::Search::Hit::HitI interface
- Bio::Search::Hit::HitFactory(3) - A factory to create Bio::Search::Hit::HitI objects
- Bio::Search::Hit::HitI(3) - Interface for a hit in a similarity search result
- Bio::Search::Hit::ModelHit(3) - A model-based implementation of the Bio::Search::Hit::HitI interface
- Bio::Search::Hit::PsiBlastHit(3) - Bioperl BLAST Hit object
- Bio::Search::Hit::PullHitI(3) - Bio::Search::Hit::HitI interface for pull parsers.
- Bio::Search::HSP::BlastHSP(3) - Bioperl BLAST High-Scoring Pair object
- Bio::Search::HSP::BlastPullHSP(3) - A parser and HSP object for BlastN hsps
- Bio::Search::HSP::FastaHSP(3) - HSP object for FASTA specific data
- Bio::Search::HSP::GenericHSP(3) - A "Generic" implementation of a High Scoring Pair
- Bio::Search::HSP::HSPFactory(3) - A factory to create Bio::Search::HSP::HSPI objects
- Bio::Search::HSP::HSPI(3) - Interface for a High Scoring Pair in a similarity search result
- Bio::Search::HSP::ModelHSP(3) - A HSP object for model-based searches
- Bio::Search::HSP::PsiBlastHSP(3) - Bioperl BLAST High-Scoring Pair object
- Bio::Search::HSP::PSLHSP(3) - A HSP for PSL output
- Bio::Search::HSP::PullHSPI(3) - Bio::Search::HSP::HSPI interface for pull parsers.
- Bio::Search::HSP::WABAHSP(3) - HSP object suitable for describing WABA alignments
- Bio::Search::Iteration::GenericIteration(3) - A generic implementation of the Bio::Search::Iteration::IterationI interface.
- Bio::Search::Iteration::IterationI(3) - Abstract interface to an iteration from an iterated search result, such as PSI-BLAST.
- Bio::Search::Processor(3) - DESCRIPTION of Object
- Bio::Search::Result::BlastPullResult(3) - A parser and result object for BLASTN results
- Bio::Search::Result::BlastResult(3) - Blast-specific subclass of Bio::Search::Result::GenericResult
- Bio::Search::Result::CrossMatchResult(3) - CrossMatch-specific subclass of Bio::Search::Result::GenericResult
- Bio::Search::Result::GenericResult(3) - Generic Implementation of Bio::Search::Result::ResultI interface applicable to most search results.
- Bio::Search::Result::INFERNALResult(3) - A Result object for INFERNAL results
- Bio::Search::Result::PullResultI(3) - Bio::Search::Result::ResultI interface for 'pull' parsers
- Bio::Search::Result::ResultFactory(3) - A factory to create Bio::Search::Result::ResultI objects
- Bio::Search::Result::ResultI(3) - Abstract interface to Search Result objects
- Bio::Search::Result::WABAResult(3) - Result object for WABA alignment output
- Bio::Search::SearchUtils(3) - Utility functions for Bio::Search:: objects
- Bio::Search::StatisticsI(3) - A Base object for statistics
- Bio::Search::Tiling::MapTileUtils(3) - utilities for manipulating closed intervals for an HSP tiling algorithm
- Bio::Search::Tiling::MapTiling(3) - An implementation of an HSP tiling algorithm, with methods to obtain frequently-requested statistics
- Bio::Search::Tiling::TilingI(3) - Abstract interface for an HSP tiling module
- Bio::SearchIO(3) - Driver for parsing Sequence Database Searches (BLAST, FASTA, ...)
- Bio::SearchIO::axt(3) - a parser for axt format reports
- Bio::SearchIO::blast(3) - Event generator for event based parsing of blast reports
- Bio::SearchIO::blast_pull(3) - A parser for BLAST output
- Bio::SearchIO::blasttable(3) - Driver module for SearchIO for parsing NCBI -m 8/9 format
- Bio::SearchIO::cross_match(3) - CrossMatch-specific subclass of Bio::SearchIO
- Bio::SearchIO::erpin(3) - SearchIO-based ERPIN parser
- Bio::SearchIO::EventHandlerI(3) - An abstract Event Handler for Search Result parsing
- Bio::SearchIO::exonerate(3) - parser for Exonerate
- Bio::SearchIO::fasta(3) - A SearchIO parser for FASTA results
- Bio::SearchIO::FastHitEventBuilder(3) - Event Handler for SearchIO events.
- Bio::SearchIO::gmap_f9(3) - Event generator for parsing gmap reports (Z format)
- Bio::SearchIO::infernal(3) - SearchIO-based Infernal parser
- Bio::SearchIO::IteratedSearchResultEventBuilder(3) - Event Handler for SearchIO events.
- Bio::SearchIO::megablast(3) - a driver module for Bio::SearchIO to parse megablast reports (format 0)
- Bio::SearchIO::psl(3) - A parser for PSL output (UCSC)
- Bio::SearchIO::rnamotif(3) - SearchIO-based RNAMotif parser
- Bio::SearchIO::SearchResultEventBuilder(3) - Event Handler for SearchIO events.
- Bio::SearchIO::SearchWriterI(3) - Interface for outputting parsed Search results
- Bio::SearchIO::sim4(3) - parser for Sim4 alignments
- Bio::SearchIO::waba(3) - SearchIO parser for Jim Kent WABA program alignment output
- Bio::SearchIO::wise(3) - Parsing of wise output as alignments
- Bio::SearchIO::Writer::GbrowseGFF(3) - Interface for outputting parsed search results in Gbrowse GFF format
- Bio::SearchIO::Writer::HitTableWriter(3) - Tab-delimited data for Bio::Search::Hit::HitI objects
- Bio::SearchIO::Writer::HSPTableWriter(3) - Tab-delimited data for Bio::Search::HSP::HSPI objects
- Bio::SearchIO::Writer::HTMLResultWriter(3) - write a Bio::Search::ResultI in HTML
- Bio::SearchIO::Writer::ResultTableWriter(3) - Outputs tab-delimited data for each Bio::Search::Result::ResultI object.
- Bio::SearchIO::Writer::TextResultWriter(3) - Object to implement writing a Bio::Search::ResultI in Text.
- Bio::Seq(3) - Sequence object, with features
- Bio::Seq::BaseSeqProcessor(3) - Base implementation for a SequenceProcessor
- Bio::Seq::EncodedSeq(3) - subtype of Bio::LocatableSeq to store DNA that encodes a protein
- Bio::Seq::LargeLocatableSeq(3) - LocatableSeq object that stores sequence as files in the tempdir
- Bio::Seq::LargePrimarySeq(3) - PrimarySeq object that stores sequence as files in the tempdir (as found by File::Temp) or the default method in Bio::Root::Root
- Bio::Seq::LargeSeq(3) - SeqI compliant object that stores sequence as files in /tmp
- Bio::Seq::LargeSeqI(3) - Interface class for sequences that cache their residues in a temporary file
- Bio::Seq::Meta(3) - Generic superclass for sequence objects with residue-based meta information
- Bio::Seq::Meta::Array(3) - array-based generic implementation of a sequence class with residue-based meta information
- Bio::Seq::MetaI(3) - Interface for sequence objects with residue-based meta information
- Bio::Seq::PrimaryQual(3) - Bioperl lightweight Quality Object
- Bio::Seq::PrimedSeq(3) - A sequence and a pair of primers matching on it
- Bio::Seq::QualI(3) - Interface definition for a Bio::Seq::Qual
- Bio::Seq::Quality(3) - Implementation of sequence with residue quality and trace values
- Bio::Seq::RichSeq(3) - Module implementing a sequence created from a rich sequence database entry
- Bio::Seq::RichSeqI(3) - interface for sequences from rich data sources, mostly databases
- Bio::Seq::SeqBuilder(3) - Configurable object builder for sequence stream parsers
- Bio::Seq::SeqFactory(3) - Instantiation of generic Bio::PrimarySeqI (or derived) objects through a factory
- Bio::Seq::SeqFastaSpeedFactory(3) - Rapid creation of Bio::Seq objects through a factory
- Bio::Seq::SequenceTrace(3) - Bioperl object packaging a sequence with its trace
- Bio::Seq::SimulatedRead(3) - Read with sequencing errors taken from a reference sequence
- Bio::Seq::TraceI(3) - Interface definition for a Bio::Seq::Trace
- Bio::SeqAnalysisParserI(3) - Sequence analysis output parser interface
- Bio::SeqFeature::Amplicon(3) - Amplicon feature
- Bio::SeqFeature::Annotated(3) - PLEASE PUT SOMETHING HERE
- Bio::SeqFeature::AnnotationAdaptor(3) - integrates SeqFeatureIs annotation
- Bio::SeqFeature::Collection(3) - A container class for SeqFeatures suitable for performing operations such as finding features within a range, that match a certain feature type, etc.
- Bio::SeqFeature::CollectionI(3) - An interface for a collection of SeqFeatureI objects.
- Bio::SeqFeature::Computation(3) - Computation SeqFeature
- Bio::SeqFeature::FeaturePair(3) - hold pair feature information e.g. blast hits
- Bio::SeqFeature::Gene::Exon(3) - a feature representing an exon
- Bio::SeqFeature::Gene::ExonI(3) - Interface for a feature representing an exon
- Bio::SeqFeature::Gene::GeneStructure(3) - A feature representing an arbitrarily complex structure of a gene
- Bio::SeqFeature::Gene::GeneStructureI(3) - A feature representing an arbitrarily complex structure of a gene
- Bio::SeqFeature::Gene::Intron(3) - An intron feature
- Bio::SeqFeature::Gene::NC_Feature(3) - superclass for non-coding features
- Bio::SeqFeature::Gene::Poly_A_site(3) - poly A feature
- Bio::SeqFeature::Gene::Promoter(3) - Describes a promoter
- Bio::SeqFeature::Gene::Transcript(3) - A feature representing a transcript
- Bio::SeqFeature::Gene::TranscriptI(3) - Interface for a feature representing a transcript of exons, promoter(s), UTR, and a poly-adenylation site.
- Bio::SeqFeature::Gene::UTR(3) - A feature representing an untranslated region that is part of a transcriptional unit
- Bio::SeqFeature::Generic(3) - Generic SeqFeature
- Bio::SeqFeature::Lite(3) - Lightweight Bio::SeqFeatureI class
- Bio::SeqFeature::PositionProxy(3) - handle features when truncation/revcom sequences span a feature
- Bio::SeqFeature::Primer(3) - Primer Generic SeqFeature
- Bio::SeqFeature::Similarity(3) - A sequence feature based on similarity
- Bio::SeqFeature::SimilarityPair(3) - Sequence feature based on the similarity of two sequences.
- Bio::SeqFeature::SubSeq(3) - Feature representing a subsequence
- Bio::SeqFeature::Tools::FeatureNamer(3) - generates unique persistent names for features
- Bio::SeqFeature::Tools::IDHandler(3) - maps $seq_feature->primary_tag
- Bio::SeqFeature::Tools::TypeMapper(3) - maps $seq_feature->primary_tag
- Bio::SeqFeature::Tools::Unflattener(3) - turns flat list of genbank-sourced features into a nested SeqFeatureI hierarchy
- Bio::SeqFeature::TypedSeqFeatureI(3) - a strongly typed SeqFeature
- Bio::SeqFeatureI(3) - Abstract interface of a Sequence Feature
- Bio::SeqI(3) - [Developers] Abstract Interface of Sequence (with features)
- Bio::SeqIO(3) - Handler for SeqIO Formats
- Bio::SeqIO::ace(3) - ace sequence input/output stream
- Bio::SeqIO::asciitree(3) - asciitree sequence input/output stream
- Bio::SeqIO::bsml(3) - BSML sequence input/output stream
- Bio::SeqIO::bsml_sax(3) - BSML sequence input/output stream using SAX
- Bio::SeqIO::embl(3) - EMBL sequence input/output stream
- Bio::SeqIO::embldriver(3) - EMBL sequence input/output stream
- Bio::SeqIO::entrezgene(3) - Entrez Gene ASN1 parser
- Bio::SeqIO::fasta(3) - fasta sequence input/output stream
- Bio::SeqIO::fastq(3) - fastq sequence input/output stream
- Bio::SeqIO::FTHelper(3) - Helper class for EMBL/Genbank feature tables
- Bio::SeqIO::game(3) - General discussion http://bioperl.org/wiki/Mailing_lists - About the mailing lists
- Bio::SeqIO::game::featHandler(3) - General discussion http://bioperl.org/wiki/Mailing_lists - About the mailing lists
- Bio::SeqIO::game::gameHandler(3) - General discussion http://bioperl.org/wiki/Mailing_lists - About the mailing lists
- Bio::SeqIO::game::gameSubs(3) - General discussion http://bioperl.org/wiki/Mailing_lists - About the mailing lists
- Bio::SeqIO::game::gameWriter(3) - General discussion http://bioperl.org/wiki/Mailing_lists - About the mailing lists
- Bio::SeqIO::game::seqHandler(3) - General discussion http://bioperl.org/wiki/Mailing_lists - About the mailing lists
- Bio::SeqIO::gbdriver(3) - GenBank handler-based push parser
- Bio::SeqIO::gbxml(3) - GenBank sequence input/output stream using SAX
- Bio::SeqIO::gcg(3) - GCG sequence input/output stream
- Bio::SeqIO::genbank(3) - GenBank sequence input/output stream
- Bio::SeqIO::Handler::GenericRichSeqHandler(3) - Bio::HandlerI-based data handler for GenBank/EMBL/UniProt (and other) sequence data
- Bio::SeqIO::interpro(3) - InterProScan XML input/output stream
- Bio::SeqIO::kegg(3) - KEGG sequence input/output stream
- Bio::SeqIO::largefasta(3) - method i/o on very large fasta sequence files
- Bio::SeqIO::locuslink(3) - LocusLink input/output stream
- Bio::SeqIO::mbsout(3) - input stream for output by Teshima et al.'s mbs.
- Bio::SeqIO::metafasta(3) - metafasta sequence input/output stream
- Bio::SeqIO::msout(3) - input stream for output by Hudson's ms
- Bio::SeqIO::MultiFile(3) - Treating a set of files as a single input stream
- Bio::SeqIO::phd(3) - phd file input/output stream
- Bio::SeqIO::pir(3) - PIR sequence input/output stream
- Bio::SeqIO::qual(3) - .qual file input/output stream
- Bio::SeqIO::raw(3) - raw sequence file input/output stream
- Bio::SeqIO::scf(3) - .scf file input/output stream
- Bio::SeqIO::seqxml(3) - SeqXML sequence input/output stream
- Bio::SeqIO::swiss(3) - Swissprot sequence input/output stream
- Bio::SeqIO::swissdriver(3) - SwissProt/UniProt handler-based push parser
- Bio::SeqIO::tab(3) - nearly raw sequence file input/output stream. Reads/writes id"\t"sequence"\n"
- Bio::SeqIO::table(3) - sequence input/output stream from a delimited table
- Bio::SeqIO::tigr(3) - TIGR XML sequence input/output stream
- Bio::SeqIO::tigrxml(3) - Parse TIGR (new) XML
- Bio::SeqIO::tinyseq(3) - reading/writing sequences in NCBI TinySeq format
- Bio::SeqIO::tinyseq::tinyseqHandler(3) - XML event handlers to support NCBI TinySeq XML parsing
- Bio::SeqUtils(3) - Additional methods for PrimarySeq objects
- Bio::SimpleAlign(3) - Multiple alignments held as a set of sequences
- Bio::SimpleAnalysisI(3) - A simple interface to any (local or remote) analysis tool
- Bio::Species(3) - Generic species object.
- Bio::Taxon(3) - A node in a represented taxonomy
- Bio::Tools::Alignment::Consed(3) - A module to work with objects from consed .ace files
- Bio::Tools::Alignment::Trim(3) - A kludge to do specialized trimming of sequence based on quality.
- Bio::Tools::AmpliconSearch(3) - Find amplicons in a template using degenerate PCR primers
- Bio::Tools::Analysis::SimpleAnalysisBase(3) - abstract superclass for SimpleAnalysis implementations
- Bio::Tools::AnalysisResult(3) - Base class for analysis result objects and parsers
- Bio::Tools::Blat(3) - parser for Blat program
- Bio::Tools::CodonTable(3) - Codon table object
- Bio::Tools::Coil(3) - parser for Coil output
- Bio::Tools::ECnumber(3) - representation of EC numbers (Enzyme Classification)
- Bio::Tools::EMBOSS::Palindrome(3) - parse EMBOSS palindrome output
- Bio::Tools::EPCR(3) - Parse ePCR output and make features
- Bio::Tools::Eponine(3) - Results of one Eponine run
- Bio::Tools::Est2Genome(3) - Parse est2genome output, makes simple Bio::SeqFeature::Generic objects
- Bio::Tools::ESTScan(3) - Results of one ESTScan run
- Bio::Tools::Fgenesh(3) - parse results of one Fgenesh run
- Bio::Tools::FootPrinter(3) - write sequence features in FootPrinter format
- Bio::Tools::Geneid(3) - Results of one geneid run
- Bio::Tools::Genemark(3) - Results of one Genemark run
- Bio::Tools::Genewise(3) - Results of one Genewise run
- Bio::Tools::Genomewise(3) - Results of one Genomewise run
- Bio::Tools::Genscan(3) - Results of one Genscan run
- Bio::Tools::GFF(3) - A Bio::SeqAnalysisParserI compliant GFF format parser
- Bio::Tools::Glimmer(3) - parser for Glimmer 2.X/3.X prokaryotic and GlimmerM/GlimmerHMM eukaryotic gene predictions
- Bio::Tools::Grail(3) - Results of one Grail run
- Bio::Tools::GuessSeqFormat(3) - Module for determining the sequence format of the contents of a file, a string, or through a filehandle.
- Bio::Tools::ipcress(3) - Parse ipcress output and make features
- Bio::Tools::isPcr(3) - Parse isPcr output and make features
- Bio::Tools::IUPAC(3) - Generates unique sequence objects or regular expressions from an ambiguous IUPAC sequence
- Bio::Tools::Lucy(3) - Object for analyzing the output from Lucy, a vector and quality trimming program from TIGR
- Bio::Tools::Match(3) - Parses output from Transfac's match(TM)
- Bio::Tools::MZEF(3) - Results of one MZEF run
- Bio::Tools::OddCodes(3) - Object holding alternative alphabet coding for one protein sequence
- Bio::Tools::Phylo::Gerp(3) - Parses output from GERP
- Bio::Tools::Phylo::Molphy(3) - parser for Molphy output
- Bio::Tools::Phylo::Molphy::Result(3) - container for data parsed from a ProtML run
- Bio::Tools::Phylo::Phylip::ProtDist(3) - parser for ProtDist output
- Bio::Tools::pICalculator(3) - calculate the isoelectric point of a protein
- Bio::Tools::Prediction::Exon(3) - A predicted exon feature
- Bio::Tools::Prediction::Gene(3) - a predicted gene structure feature
- Bio::Tools::Primer::Assessor::Base(3) - base class for common assessor things
- Bio::Tools::Primer::AssessorI(3) - interface for assessing primer pairs
- Bio::Tools::Primer::Feature(3) - position of a single primer
- Bio::Tools::Primer::Pair(3) - two primers on left and right side
- Bio::Tools::Primer3(3) - Create input for and work with the output from the program primer3
- Bio::Tools::Prints(3) - Parser for FingerPRINTScanII program
- Bio::Tools::Profile(3) - parse Profile output
- Bio::Tools::Promoterwise(3) - parser for Promoterwise tab format output
- Bio::Tools::PrositeScan(3) - Parser for ps_scan result
- Bio::Tools::Pseudowise(3) - Results of one Pseudowise run
- Bio::Tools::QRNA(3) - A Parser for qrna output
- Bio::Tools::RandomDistFunctions(3) - A set of routines useful for generating random data in different distributions
- Bio::Tools::RepeatMasker(3) - a parser for RepeatMasker output
- Bio::Tools::Run::Alignment::Amap(3) - Object for the calculation of an iterative multiple sequence alignment from a set of unaligned sequences or alignments using the Amap (2.0) program
- Bio::Tools::Run::Alignment::Blat(3) - General discussion http://bioperl.org/wiki/Mailing_lists - About the mailing lists
- Bio::Tools::Run::Alignment::DBA(3) - Object for the alignment of two sequences using the DNA Block Aligner program.
- Bio::Tools::Run::Alignment::Exonerate(3) - 2.2.
- Bio::Tools::Run::Alignment::Gmap(3) - Wrapper for running gmap.
- Bio::Tools::Run::Alignment::Kalign(3) - Object for the calculation of an iterative multiple sequence alignment from a set of unaligned sequences or alignments using the KALIGN program
- Bio::Tools::Run::Alignment::Lagan(3) - Object for the local execution of the LAGAN suite of tools (including MLAGAN for multiple sequence alignments)
- Bio::Tools::Run::Alignment::MAFFT(3) - run the MAFFT alignment tools
- Bio::Tools::Run::Alignment::MSAProbs(3) - Object for the calculation of a multiple sequence alignment (MSA) from a set of unaligned sequences using the MSAProbs program
- Bio::Tools::Run::Alignment::Muscle(3) - Object for the calculation of an iterative multiple sequence alignment from a set of unaligned sequences or alignments using the MUSCLE program
- Bio::Tools::Run::Alignment::Pal2Nal(3) - Wrapper for Pal2Nal
- Bio::Tools::Run::Alignment::Probalign(3) - Object for the calculation of a multiple sequence alignment from a set of unaligned sequences or alignments using the Probalign program
- Bio::Tools::Run::Alignment::Probcons(3) - Object for the calculation of an iterative multiple sequence alignment from a set of unaligned sequences or alignments using the Probcons program
- Bio::Tools::Run::Alignment::Proda(3) - Object for the calculation of sets of multiple sequence alignments from a set of unaligned sequences or alignments using the Proda program.
- Bio::Tools::Run::Alignment::Sim4(3) - Wrapper for Sim4 program that allows for alignment of cdna to genomic sequences
- Bio::Tools::Run::Alignment::StandAloneFasta(3) - Object for the local execution of the Fasta3 programs ((t)fasta3, (t)fastx3, (t)fasty3 ssearch3)
- Bio::Tools::Run::Analysis(3) - Module representing any (remote or local) analysis tool
- Bio::Tools::Run::Analysis::soap(3) - A SOAP-based access to the analysis tools
- Bio::Tools::Run::AnalysisFactory(3) - A directory of analysis tools
- Bio::Tools::Run::AnalysisFactory::soap(3) - A SOAP-based access to the list of analysis tools
- Bio::Tools::Run::BEDTools(3) - Run wrapper for the BEDTools suite of programs *BETA*
- Bio::Tools::Run::BEDTools::Config(3) - Configuration data for bowtie commands
- Bio::Tools::Run::BlastPlus(3) - A wrapper for NCBI's blast+ suite
- Bio::Tools::Run::Coil(3) - wrapper for ncoils program
- Bio::Tools::Run::EMBOSSacd(3) - class for EMBOSS Application qualifiers
- Bio::Tools::Run::EMBOSSApplication(3) - class for EMBOSS Applications
- Bio::Tools::Run::Ensembl(3) - A simplified front-end for setting up the registry for, and then using an Ensembl database with the Ensembl Perl API.
- Bio::Tools::Run::Eponine(3) - Object for execution of the Eponine which is a mammalian TSS predictor
- Bio::Tools::Run::ERPIN(3) - Wrapper for local execution of the ERPIN suite of programs.
- Bio::Tools::Run::FootPrinter(3) - wrapper for the FootPrinter program
- Bio::Tools::Run::Genemark(3) - Wrapper for local execution of the GeneMark family of programs.
- Bio::Tools::Run::GenericParameters(3) - An object for the parameters used to run programs
- Bio::Tools::Run::Genewise(3) - Object for predicting genes in a given sequence given a protein
- Bio::Tools::Run::Genscan(3) - Object for identifying genes in a given sequence given a matrix(for appropriate organisms).
- Bio::Tools::Run::Glimmer(3) - Wrapper for local execution of Glimmer, GlimmerM and GlimmerHMM.
- Bio::Tools::Run::Hmmer(3) - Wrapper for local execution of hmmalign, hmmbuild, hmmcalibrate, hmmemit, hmmpfam, hmmsearch
- Bio::Tools::Run::Infernal(3) - Wrapper for local execution of cmalign, cmbuild, cmsearch, cmscore
- Bio::Tools::Run::Match(3) - Wrapper for Transfac's match(TM)
- Bio::Tools::Run::MCS(3) - Wrapper for MCS
- Bio::Tools::Run::Mdust(3) - Perl extension for Mdust nucleotide filtering
- Bio::Tools::Run::ParametersI(3) - A Base object for the parameters used to run programs
- Bio::Tools::Run::Phylo::FastTree(3) - General discussion http://bioperl.org/wiki/Mailing_lists - About the mailing lists
- Bio::Tools::Run::Phylo::Gerp(3) - Wrapper for GERP
- Bio::Tools::Run::Phylo::Hyphy::Base(3) - Hyphy wrapping base methods
- Bio::Tools::Run::Phylo::Hyphy::BatchFile(3) - Wrapper for custom execution of Hyphy batch files
- Bio::Tools::Run::Phylo::Hyphy::FEL(3) - Wrapper around the Hyphy FEL analysis
- Bio::Tools::Run::Phylo::Hyphy::Modeltest(3) - Wrapper around the Hyphy Modeltest analysis
- Bio::Tools::Run::Phylo::Hyphy::REL(3) - Wrapper around the Hyphy REL analysis
- Bio::Tools::Run::Phylo::Hyphy::SLAC(3) - Wrapper around the Hyphy SLAC analysis
- Bio::Tools::Run::Phylo::LVB(3) - Object for using the LVB program to create an array of Bio::Tree objects from a nucleotide multiple alignment file or a nucleotide SimpleAlign object. Works with LVB version 2.1.
- Bio::Tools::Run::Phylo::Molphy::ProtML(3) - A wrapper for the Molphy pkg app ProtML
- Bio::Tools::Run::Phylo::Njtree::Best(3) - Wrapper around the Njtree (Njtree/phyml) best program.
- Bio::Tools::Run::Phylo::Phast::PhastCons(3) - Wrapper for footprinting using phastCons
- Bio::Tools::Run::Phylo::Phast::PhyloFit(3) - Wrapper for phyloFit
- Bio::Tools::Run::Phylo::Phylip::Base(3) - Base object for Phylip modules
- Bio::Tools::Run::Phylo::Phylip::Consense(3) - Wrapper for the phylip program Consense
- Bio::Tools::Run::Phylo::Phylip::DrawGram(3) - use Phylip DrawTree program to draw phylograms or phenograms
- Bio::Tools::Run::Phylo::Phylip::DrawTree(3) - use Phylip DrawTree program to draw trees
- Bio::Tools::Run::Phylo::Phylip::Neighbor(3) - Wrapper for the phylip program neighbor by Joseph Felsenstein for creating a phylogenetic tree(either through Neighbor or UPGMA) based on protein distances based on amino substitution rate.
- Bio::Tools::Run::Phylo::Phylip::PhylipConf(3) - General discussion http://bioperl.org/wiki/Mailing_lists - About the mailing lists
- Bio::Tools::Run::Phylo::Phylip::ProtDist(3) - Wrapper for the phylip program protdist
- Bio::Tools::Run::Phylo::Phylip::ProtPars(3) - Object for creating a Bio::Tree object from a multiple alignment file or a SimpleAlign object
- Bio::Tools::Run::Phylo::Phylip::SeqBoot(3) - Wrapper for the phylip program SeqBoot
- Bio::Tools::Run::Phylo::PhyloBase(3) - General discussion http://bioperl.org/wiki/Mailing_lists - About the mailing lists
- Bio::Tools::Run::Phylo::Phyml(3) - Wrapper for rapid reconstruction of phylogenies using Phyml
- Bio::Tools::Run::Phylo::QuickTree(3) - Wrapper for rapid reconstruction of phylogenies using QuickTree
- Bio::Tools::Run::Phylo::Raxml(3) - General discussion http://bioperl.org/wiki/Mailing_lists - About the mailing lists
- Bio::Tools::Run::Phylo::Semphy(3) - Wrapper for Semphy
- Bio::Tools::Run::Phylo::SLR(3) - Wrapper around the SLR program
- Bio::Tools::Run::Primate(3) - General discussion http://bioperl.org/wiki/Mailing_lists - About the mailing lists
- Bio::Tools::Run::Primer3(3) - Create input for and work with the output from the program primer3
- Bio::Tools::Run::Prints(3) - General discussion http://bioperl.org/wiki/Mailing_lists - About the mailing lists
- Bio::Tools::Run::Profile(3) - General discussion http://bioperl.org/wiki/Mailing_lists - About the mailing lists
- Bio::Tools::Run::Promoterwise(3) - Wrapper for aligning two sequences using promoterwise
- Bio::Tools::Run::Pseudowise(3) - Object for prediting pseudogenes in a given sequence given a protein and a cdna sequence
- Bio::Tools::Run::RepeatMasker(3) - Wrapper for RepeatMasker Program
- Bio::Tools::Run::RNAMotif(3) - Wrapper for local execution of rnamotif, rm2ct, rmfmt, rmprune
- Bio::Tools::Run::Samtools(3) - a run wrapper for the samtools suite *BETA*
- Bio::Tools::Run::Samtools::Config(3) - configurator for Bio::Tools::Run::Samtools
- Bio::Tools::Run::Seg(3) - Object for identifying low complexity regions in a given protein seequence.
- Bio::Tools::Run::Signalp(3) - General discussion http://bioperl.org/wiki/Mailing_lists - About the mailing lists
- Bio::Tools::Run::Simprot(3) - Wrapper around the Simprot program. Wrapper for the calculation of a multiple sequence alignment from a phylogenetic tree
- Bio::Tools::Run::StandAloneBlast(3) - Object for the local execution of the NCBI BLAST program suite (blastall, blastpgp, bl2seq). There is experimental support for WU-Blast and NCBI rpsblast.
- Bio::Tools::Run::StandAloneBlastPlus(3) - Compute with NCBI's blast+ suite *ALPHA*
- Bio::Tools::Run::StandAloneBlastPlus::BlastMethods(3) - Provides BLAST methods to StandAloneBlastPlus
- Bio::Tools::Run::StandAloneNCBIBlast(3) - Object for the local execution of the NCBI BLAST program suite (blastall, blastpgp, bl2seq). With experimental support for NCBI rpsblast.
- Bio::Tools::Run::StandAloneWUBlast(3) - Object for the local execution of WU-Blast.
- Bio::Tools::Run::Tmhmm(3) - Object for identifying transmembrane helixes in a given protein seequence.
- Bio::Tools::Run::TribeMCL(3) - General discussion http://bioperl.org/wiki/Mailing_lists - About the mailing lists
- Bio::Tools::Run::tRNAscanSE(3) - Wrapper for local execution of tRNAscan-SE
- Bio::Tools::Run::Vista(3) - General discussion http://bioperl.org/wiki/Mailing_lists - About the mailing lists
- Bio::Tools::Run::WrapperBase(3) - A Base object for wrappers around executables
- Bio::Tools::Run::WrapperBase::CommandExts(3) - Extensions to WrapperBase for handling programs with commands *ALPHA*
- Bio::Tools::Seg(3) - parse "seg" output
- Bio::Tools::SeqPattern(3) - represent a sequence pattern or motif
- Bio::Tools::SeqPattern::Backtranslate(3) - reverse translate protein patterns
- Bio::Tools::SeqStats(3) - Object holding statistics for one particular sequence
- Bio::Tools::SeqWords(3) - Object holding n-mer statistics for a sequence
- Bio::Tools::Sigcleave(3) - Bioperl object for sigcleave analysis
- Bio::Tools::Signalp(3) - parser for Signalp output
- Bio::Tools::Signalp::ExtendedSignalp(3) - enhanced parser for Signalp output
- Bio::Tools::Sim4::Exon(3) - A single exon determined by an alignment
- Bio::Tools::Sim4::Results(3) - Results of one Sim4 run
- Bio::Tools::Spidey::Exon(3) - A single exon determined by an alignment
- Bio::Tools::Spidey::Results(3) - Results of a Spidey run
- Bio::Tools::TandemRepeatsFinder(3) - a parser for Tandem Repeats Finder output
- Bio::Tools::TargetP(3) - Results of one TargetP run
- Bio::Tools::Tmhmm(3) - parse TMHMM output (TransMembrane HMM)
- Bio::Tools::tRNAscanSE(3) - A parser for tRNAscan-SE output
- Bio::Tree::AnnotatableNode(3) - A Tree Node with support for annotation
- Bio::Tree::Compatible(3) - Testing compatibility of phylogenetic trees with nested taxa.
- Bio::Tree::DistanceFactory(3) - Construct a tree using distance based methods
- Bio::Tree::Node(3) - A Simple Tree Node
- Bio::Tree::NodeI(3) - Interface describing a Tree Node
- Bio::Tree::NodeNHX(3) - A Simple Tree Node with support for NHX tags
- Bio::Tree::RandomFactory(3) - TreeFactory for generating Random Trees
- Bio::Tree::Statistics(3) - Calculate certain statistics for a Tree
- Bio::Tree::Tree(3) - An implementation of the TreeI interface.
- Bio::Tree::TreeFunctionsI(3) - Decorated Interface implementing basic Tree exploration methods
- Bio::Tree::TreeI(3) - A Tree object suitable for lots of things, designed originally for Phylogenetic Trees.
- Bio::TreeIO(3) - Parser for Tree files
- Bio::TreeIO::cluster(3) - A TreeIO driver module for parsing Algorithm::Cluster::treecluster() output
- Bio::TreeIO::lintree(3) - Parser for lintree output trees
- Bio::TreeIO::newick(3) - parsing and writing of Newick/PHYLIP/New Hampshire format
- Bio::TreeIO::NewickParser(3) - newick string parser
- Bio::TreeIO::nexus(3) - A TreeIO driver module for parsing Nexus tree output from PAUP
- Bio::TreeIO::nhx(3) - TreeIO implementation for parsing Newick/New Hampshire eXtendend (NHX) format.
- Bio::TreeIO::pag(3) - Bio::TreeIO driver for Pagel format
- Bio::TreeIO::phyloxml(3) - TreeIO implementation for parsing PhyloXML format.
- Bio::TreeIO::tabtree(3) - A simple output format which displays a tree as an ASCII drawing
- Bio::TreeIO::TreeEventBuilder(3) - Build Bio::Tree::Tree's and Bio::Tree::Node's from Events
- Bio::UpdateableSeqI(3) - Descendant of Bio::SeqI that allows updates
- Bio::Variation(3)
- Bio::Variation::AAChange(3) - Sequence change class for polypeptides
- Bio::Variation::AAReverseMutate(3) - point mutation and codon information from single amino acid changes
- Bio::Variation::Allele(3) - Sequence object with allele-specific attributes
- Bio::Variation::DNAMutation(3) - DNA level mutation class
- Bio::Variation::IO(3) - Handler for sequence variation IO Formats
- Bio::Variation::IO::flat(3) - flat file sequence variation input/output stream
- Bio::Variation::IO::xml(3) - XML sequence variation input/output stream
- Bio::Variation::RNAChange(3) - Sequence change class for RNA level
- Bio::Variation::SeqDiff(3) - Container class for mutation/variant descriptions
- Bio::Variation::SNP(3) - submitted SNP
- Bio::Variation::VariantI(3) - Sequence Change SeqFeature abstract class
- Bio::WebAgent(3) - A base class for Web (any protocol) access
- BIO_ADDR(3) - BIO_ADDR routines
- BIO_ADDR(3ossl) - BIO_ADDR routines
- BIO_ADDRINFO(3) - BIO_ADDRINFO type and routines
- BIO_ADDRINFO(3ossl) - BIO_ADDRINFO type and routines
- BIO_CONNECT(3) - BIO socket communication setup routines
- BIO_CONNECT(3ossl) - BIO socket communication setup routines
- BIO_CTRL(3) - BIO control operations
- BIO_CTRL(3ossl) - BIO control operations
- BIO_DUMP(3) - hexadecimal printout of arbitrary byte arrays
- BIO_F_ASN1(3) - BER-encoding filter BIO
- BIO_F_BASE64(3) - base64 BIO filter
- BIO_F_BASE64(3ossl) - base64 BIO filter
- BIO_F_BUFFER(3) - buffering BIO
- BIO_F_BUFFER(3ossl) - buffering BIO
- BIO_F_CIPHER(3) - cipher BIO filter
- BIO_F_CIPHER(3ossl) - cipher BIO filter
- BIO_F_MD(3) - message digest BIO filter
- BIO_F_MD(3ossl) - message digest BIO filter
- BIO_F_NULL(3) - null filter
- BIO_F_NULL(3ossl) - null filter
- BIO_F_PREFIX(3ossl) - prefix BIO filter
- BIO_F_READBUFFER(3ossl) - read only buffering BIO that supports BIO_tell() and BIO_seek()
- BIO_F_SSL(3) - SSL BIO
- BIO_F_SSL(3ossl) - SSL BIO
- BIO_FIND_TYPE(3) - BIO chain traversal
- BIO_FIND_TYPE(3ossl) - BIO chain traversal
- BIO_GET_DATA(3) - functions for managing BIO state information
- BIO_GET_DATA(3ossl) - functions for managing BIO state information
- BIO_GET_EX_NEW_INDEX(3) - application-specific data
- BIO_GET_EX_NEW_INDEX(3ossl) - application-specific data
- BIO_METH_NEW(3) - Routines to build up BIO methods
- BIO_METH_NEW(3ossl) - Routines to build up BIO methods
- BIO_NEW(3) - BIO allocation and freeing functions
- BIO_NEW(3ossl) - BIO allocation and freeing functions
- BIO_NEW_CMS(3) - CMS streaming filter BIO
- BIO_NEW_CMS(3ossl) - CMS streaming filter BIO
- BIO_NEW_NDEF(3) - generic constructor for streaming BIO chains
- BIO_PARSE_HOSTSERV(3) - utility routines to parse a standard host and service string
- BIO_PARSE_HOSTSERV(3ossl) - utility routines to parse a standard host and service string
- BIO_PRINTF(3) - formatted output to a BIO
- BIO_PRINTF(3ossl) - formatted output to a BIO
- BIO_PUSH(3) - add and remove BIOs from a chain
- BIO_PUSH(3ossl) - add and remove BIOs from a chain
- BIO_READ(3) - BIO I/O functions
- BIO_READ(3ossl) - BIO I/O functions
- BIO_S_ACCEPT(3) - accept BIO
- BIO_S_ACCEPT(3ossl) - accept BIO
- BIO_S_BIO(3) - BIO pair BIO
- BIO_S_BIO(3ossl) - BIO pair BIO
- BIO_S_CONNECT(3) - connect BIO
- BIO_S_CONNECT(3ossl) - connect BIO
- BIO_S_CORE(3ossl) - OSSL_CORE_BIO functions
- BIO_S_FD(3) - file descriptor BIO
- BIO_S_FD(3ossl) - file descriptor BIO
- BIO_S_FILE(3) - FILE bio
- BIO_S_FILE(3ossl) - FILE bio
- BIO_S_MEM(3) - memory BIO
- BIO_S_MEM(3ossl) - memory BIO
- BIO_S_NULL(3) - null data sink
- BIO_S_NULL(3ossl) - null data sink
- BIO_S_SOCKET(3) - socket BIO
- BIO_S_SOCKET(3ossl) - socket BIO
- BIO_SET_CALLBACK(3) - BIO callback functions
- BIO_SET_CALLBACK(3ossl) - BIO callback functions
- BIO_SHOULD_RETRY(3) - BIO retry functions
- BIO_SHOULD_RETRY(3ossl) - BIO retry functions
- BIO_SOCKET_WAIT(3ossl) - BIO connection utility functions
- BIOLIBC(3) - Library of high-performance low-level functions for bioinformatics programming
- BioPerl(3) - Perl modules for biology
- BIORYTHM(6) - simple biorythm calculation program
- BIOS(9) - interact with PC BIOS
- BIOSDECODE(8) - BIOS information decoder
- BIOSFONT(4) - retrieve font bitmaps from BIOS memory
- BIOSIG_FHIR(1) - provides fhir binary template for biosignal data
- BIOSIG2GDF(1) - converts different biomedical signal file formats into a simplified version of GDF, and can stream the result to stdout. This is useful for reading the data by an unnamed pipe into different programming environment, while a simplified parser can be used to decode the data. The conversion performs a conversion to GDFv3 format, where all channels have the same data type and the same sampling rate.
- BIP(1) - BIP IRC Proxy
- BIP.CONF(5) - Configuration file for BIP IRC Proxy
- BIPMKPW(1) - Password hasher for BIP
- birthday(1) - warn about upcoming birthdays and other events
- BISON(1) - GNU Project parser generator (yacc replacement)
- Bit::Vector::Minimal(3) - Object-oriented wrapper around vec()
- Bit::Vector::Overload(3) - Overloaded operators add-on for Bit::Vector
- Bit::Vector::String(3) - Generic string import/export for Bit::Vector
- BITARR(3) - bit array manipulation
- BitchX(1) - The Ultimate IRC Client
- BITCOIN-CLI(1) - manual page for bitcoin-cli v22.0.0
- BITCOIND(1) - manual page for bitcoind v22.0.0
- BITCOIN-QT(1) - manual page for bitcoin-qt v22.0.0
- BITCOIN-TX(1) - manual page for bitcoin-tx v22.0.0
- BITLBEE.CONF(5) - configuration file for
- bitlbee(8) - IRC gateway to IM chat networks
- BITLY_URL(1) - Command-line interface to WWW::Shorten::Bitly
- BITMAP(1) - bitmap editor and converter utilities for the X Window System
- bitmap(n) - Images that display two colors
- bitmap_color_depth(3) - Returns the color depth of the specified bitmap. Allegro game programming library.
- bitmap_mask_color(3) - Returns the mask color of the specified bitmap. Allegro game programming library.
- bitmap2pp(1) - Bitmap to PDF/PS converter
- bitset(3m) - functions for manipulating memory as sets of bits
- BITSET(9) - bitset manipulation macros
- BitTorrent(3) - Search and Download .torrent(s) files from BitTorrents boards.
- BITTWIST(1) - 2011 Addy Yeow Chin Heng <ayeowch@gmail.com>
- BITTWISTB(1) - 2011 Addy Yeow Chin Heng <ayeowch@gmail.com>
- BITTWISTE(1)
- BITWISE(1) - Terminal based bit manipulator in ncurses
- BKPUPSD(8) - Simple UPS daemon for APC BK-Pro series
- BKTR(4)
- bl_align_map_seq_exact(3)
- bl_align_map_seq_sub(3)
- BL_ALIGN_MAX_MISMATCH_PERCENT(3)
- BL_ALIGN_MIN_MATCH(3)
- bl_align_set_max_mismatch_percent(3)
- bl_align_set_min_match(3)
- BL_BED_BLOCK_COUNT(3)
- BL_BED_BLOCK_SIZES(3)
- BL_BED_BLOCK_SIZES_AE(3)
- BL_BED_BLOCK_STARTS(3)
- BL_BED_BLOCK_STARTS_AE(3)
- bl_bed_check_order(3)
- BL_BED_CHROM(3)
- BL_BED_CHROM_AE(3)
- BL_BED_CHROM_END(3)
- BL_BED_CHROM_START(3)
- BL_BED_FIELDS(3)
- bl_bed_gff_cmp(3)
- BL_BED_ITEM_RGB(3)
- BL_BED_ITEM_RGB_AE(3)
- BL_BED_NAME(3)
- BL_BED_NAME_AE(3)
- bl_bed_read(3)
- BL_BED_SCORE(3)
- bl_bed_set_block_count(3)
- bl_bed_set_block_sizes(3)
- bl_bed_set_block_sizes_ae(3)
- bl_bed_set_block_sizes_cpy(3)
- bl_bed_set_block_starts(3)
- bl_bed_set_block_starts_ae(3)
- bl_bed_set_block_starts_cpy(3)
- bl_bed_set_chrom_ae(3)
- bl_bed_set_chrom_cpy(3)
- bl_bed_set_chrom_end(3)
- bl_bed_set_chrom_start(3)
- bl_bed_set_fields(3)
- bl_bed_set_item_rgb_ae(3)
- bl_bed_set_item_rgb_cpy(3)
- bl_bed_set_name_ae(3)
- bl_bed_set_name_cpy(3)
- bl_bed_set_score(3)
- bl_bed_set_strand(3)
- bl_bed_set_thick_end(3)
- bl_bed_set_thick_start(3)
- bl_bed_skip_header(3)
- BL_BED_STRAND(3)
- BL_BED_THICK_END(3)
- BL_BED_THICK_START(3)
- bl_bed_write(3)
- bl_chrom_name_cmp(3)
- BL_FASTA_DESC(3)
- BL_FASTA_DESC_AE(3)
- BL_FASTA_DESC_ARRAY_SIZE(3)
- BL_FASTA_DESC_LEN(3)
- bl_fasta_free(3)
- bl_fasta_init(3)
- bl_fasta_read(3)
- BL_FASTA_SEQ(3)
- BL_FASTA_SEQ_AE(3)
- BL_FASTA_SEQ_ARRAY_SIZE(3)
- BL_FASTA_SEQ_LEN(3)
- bl_fasta_set_desc(3)
- bl_fasta_set_desc_ae(3)
- bl_fasta_set_desc_array_size(3)
- bl_fasta_set_desc_cpy(3)
- bl_fasta_set_desc_len(3)
- bl_fasta_set_seq(3)
- bl_fasta_set_seq_ae(3)
- bl_fasta_set_seq_array_size(3)
- bl_fasta_set_seq_cpy(3)
- bl_fasta_set_seq_len(3)
- bl_fasta_write(3)
- bl_fastq_3p_trim(3)
- BL_FASTQ_DESC(3)
- BL_FASTQ_DESC_AE(3)
- BL_FASTQ_DESC_ARRAY_SIZE(3)
- BL_FASTQ_DESC_LEN(3)
- bl_fastq_find_3p_low_qual(3)
- bl_fastq_free(3)
- bl_fastq_init(3)
- bl_fastq_name_cmp(3)
- BL_FASTQ_PLUS(3)
- BL_FASTQ_PLUS_AE(3)
- BL_FASTQ_PLUS_ARRAY_SIZE(3)
- BL_FASTQ_PLUS_LEN(3)
- BL_FASTQ_QUAL(3)
- BL_FASTQ_QUAL_AE(3)
- BL_FASTQ_QUAL_ARRAY_SIZE(3)
- BL_FASTQ_QUAL_LEN(3)
- bl_fastq_read(3)
- BL_FASTQ_SEQ(3)
- BL_FASTQ_SEQ_AE(3)
- BL_FASTQ_SEQ_ARRAY_SIZE(3)
- BL_FASTQ_SEQ_LEN(3)
- bl_fastq_set_desc(3)
- bl_fastq_set_desc_ae(3)
- bl_fastq_set_desc_array_size(3)
- bl_fastq_set_desc_cpy(3)
- bl_fastq_set_desc_len(3)
- bl_fastq_set_plus(3)
- bl_fastq_set_plus_ae(3)
- bl_fastq_set_plus_array_size(3)
- bl_fastq_set_plus_cpy(3)
- bl_fastq_set_plus_len(3)
- bl_fastq_set_qual(3)
- bl_fastq_set_qual_ae(3)
- bl_fastq_set_qual_array_size(3)
- bl_fastq_set_qual_cpy(3)
- bl_fastq_set_qual_len(3)
- bl_fastq_set_seq(3)
- bl_fastq_set_seq_ae(3)
- bl_fastq_set_seq_array_size(3)
- bl_fastq_set_seq_cpy(3)
- bl_fastq_set_seq_len(3)
- bl_fastq_write(3)
- BL_FASTX_}(3)
- bl_fastx_desc(3)
- bl_fastx_desc_len(3)
- BL_FASTX_FASTA(3)
- BL_FASTX_FASTQ(3)
- BL_FASTX_FORMAT(3)
- bl_fastx_free(3)
- bl_fastx_init(3)
- bl_fastx_plus(3)
- bl_fastx_plus_len(3)
- bl_fastx_qual(3)
- bl_fastx_qual_len(3)
- bl_fastx_read(3)
- bl_fastx_seq(3)
- bl_fastx_seq_len(3)
- bl_fastx_set_fasta(3)
- bl_fastx_set_fastq(3)
- bl_fastx_set_format(3)
- BL_FASTX_UNION(3)
- bl_fastx_write(3)
- BL_GFF_ATTRIBUTES(3)
- BL_GFF_ATTRIBUTES_AE(3)
- bl_gff_copy_header(3)
- BL_GFF_END(3)
- bl_gff_extract_attribute(3)
- BL_GFF_FEATURE_ID(3)
- BL_GFF_FEATURE_ID_AE(3)
- BL_GFF_FEATURE_NAME(3)
- BL_GFF_FEATURE_NAME_AE(3)
- BL_GFF_FILE_POS(3)
- bl_gff_free(3)
- bl_gff_index_add(3)
- BL_GFF_INDEX_ARRAY_SIZE(3)
- BL_GFF_INDEX_COUNT(3)
- BL_GFF_INDEX_END(3)
- BL_GFF_INDEX_END_AE(3)
- BL_GFF_INDEX_FILE_POS(3)
- BL_GFF_INDEX_FILE_POS_AE(3)
- bl_gff_index_seek_reverse(3)
- BL_GFF_INDEX_SEQID(3)
- BL_GFF_INDEX_SEQID_AE(3)
- bl_gff_index_set_array_size(3)
- bl_gff_index_set_count(3)
- bl_gff_index_set_end(3)
- bl_gff_index_set_end_ae(3)
- bl_gff_index_set_end_cpy(3)
- bl_gff_index_set_file_pos(3)
- bl_gff_index_set_file_pos_ae(3)
- bl_gff_index_set_file_pos_cpy(3)
- bl_gff_index_set_seqid(3)
- bl_gff_index_set_seqid_ae(3)
- bl_gff_index_set_seqid_cpy(3)
- bl_gff_index_set_start(3)
- bl_gff_index_set_start_ae(3)
- bl_gff_index_set_start_cpy(3)
- BL_GFF_INDEX_START(3)
- BL_GFF_INDEX_START_AE(3)
- bl_gff_init(3)
- BL_GFF_PHASE(3)
- bl_gff_read(3)
- BL_GFF_SCORE(3)
- BL_GFF_SEQID(3)
- BL_GFF_SEQID_AE(3)
- bl_gff_set_attributes(3)
- bl_gff_set_attributes_ae(3)
- bl_gff_set_attributes_cpy(3)
- bl_gff_set_end(3)
- bl_gff_set_feature_id(3)
- bl_gff_set_feature_id_ae(3)
- bl_gff_set_feature_id_cpy(3)
- bl_gff_set_feature_name(3)
- bl_gff_set_feature_name_ae(3)
- bl_gff_set_feature_name_cpy(3)
- bl_gff_set_file_pos(3)
- bl_gff_set_gene_name_cpy(3)
- bl_gff_set_phase(3)
- bl_gff_set_score(3)
- bl_gff_set_seqid_ae(3)
- bl_gff_set_seqid_cpy(3)
- bl_gff_set_source_ae(3)
- bl_gff_set_source_cpy(3)
- bl_gff_set_start(3)
- bl_gff_set_strand(3)
- bl_gff_set_type_ae(3)
- bl_gff_set_type_cpy(3)
- bl_gff_skip_header(3)
- BL_GFF_SOURCE(3)
- BL_GFF_SOURCE_AE(3)
- BL_GFF_START(3)
- BL_GFF_STRAND(3)
- bl_gff_to_bed(3)
- BL_GFF_TYPE(3)
- BL_GFF_TYPE_AE(3)
- bl_gff_write(3)
- bl_next_start_codon(3)
- bl_next_stop_codon(3)
- BL_OVERLAP_FEATURE1_LEN(3)
- BL_OVERLAP_FEATURE2_LEN(3)
- BL_OVERLAP_OVERLAP_END(3)
- BL_OVERLAP_OVERLAP_LEN(3)
- BL_OVERLAP_OVERLAP_START(3)
- bl_overlap_print(3)
- bl_overlap_set_all(3)
- bl_overlap_set_feature1_len(3)
- bl_overlap_set_feature2_len(3)
- bl_overlap_set_overlap_end(3)
- bl_overlap_set_overlap_len(3)
- bl_overlap_set_overlap_start(3)
- bl_pos_list_add_position(3)
- bl_pos_list_allocate(3)
- BL_POS_LIST_ARRAY_SIZE(3)
- BL_POS_LIST_COUNT(3)
- bl_pos_list_free(3)
- bl_pos_list_from_csv(3)
- BL_POS_LIST_POSITIONS(3)
- BL_POS_LIST_POSITIONS_AE(3)
- bl_pos_list_set_array_size(3)
- bl_pos_list_set_count(3)
- bl_pos_list_set_positions(3)
- bl_pos_list_set_positions_ae(3)
- bl_pos_list_set_positions_cpy(3)
- bl_pos_list_sort(3)
- bl_sam_buff_add_alignment(3)
- bl_sam_buff_alignment_ok(3)
- BL_SAM_BUFF_ALIGNMENTS(3)
- BL_SAM_BUFF_ALIGNMENTS_AE(3)
- BL_SAM_BUFF_BUFF_SIZE(3)
- BL_SAM_BUFF_BUFFERED_COUNT(3)
- bl_sam_buff_check_order(3)
- BL_SAM_BUFF_DISCARDED_ALIGNMENTS(3)
- BL_SAM_BUFF_DISCARDED_SCORE_SUM(3)
- BL_SAM_BUFF_DISCARDED_TRAILING(3)
- bl_sam_buff_free_alignment(3)
- BL_SAM_BUFF_INC_DISCARDED_TRAILING(3)
- BL_SAM_BUFF_INC_TOTAL_ALIGNMENTS(3)
- BL_SAM_BUFF_INC_TRAILING_ALIGNMENTS(3)
- bl_sam_buff_init(3)
- BL_SAM_BUFF_MAPQ_HIGH(3)
- BL_SAM_BUFF_MAPQ_LOW(3)
- BL_SAM_BUFF_MAPQ_MIN(3)
- BL_SAM_BUFF_MAPQ_SUM(3)
- BL_SAM_BUFF_MAX_ALIGNMENTS(3)
- BL_SAM_BUFF_MAX_COUNT(3)
- BL_SAM_BUFF_MAX_DISCARDED_SCORE(3)
- BL_SAM_BUFF_MIN_DISCARDED_SCORE(3)
- bl_sam_buff_out_of_order(3)
- BL_SAM_BUFF_PREVIOUS_POS(3)
- BL_SAM_BUFF_PREVIOUS_RNAME(3)
- BL_SAM_BUFF_PREVIOUS_RNAME_AE(3)
- BL_SAM_BUFF_READS_USED(3)
- bl_sam_buff_set_alignments(3)
- bl_sam_buff_set_alignments_ae(3)
- bl_sam_buff_set_alignments_cpy(3)
- bl_sam_buff_set_buff_size(3)
- bl_sam_buff_set_buffered_count(3)
- bl_sam_buff_set_discarded_alignments(3)
- bl_sam_buff_set_discarded_score_sum(3)
- bl_sam_buff_set_discarded_trailing(3)
- bl_sam_buff_set_mapq_high(3)
- bl_sam_buff_set_mapq_low(3)
- bl_sam_buff_set_mapq_min(3)
- bl_sam_buff_set_mapq_sum(3)
- bl_sam_buff_set_max_alignments(3)
- bl_sam_buff_set_max_count(3)
- bl_sam_buff_set_max_discarded_score(3)
- bl_sam_buff_set_min_discarded_score(3)
- bl_sam_buff_set_previous_pos(3)
- bl_sam_buff_set_previous_rname_ae(3)
- bl_sam_buff_set_previous_rname_cpy(3)
- bl_sam_buff_set_reads_used(3)
- bl_sam_buff_set_total_alignments(3)
- bl_sam_buff_set_trailing_alignments(3)
- bl_sam_buff_set_unmapped_alignments(3)
- bl_sam_buff_shift(3)
- BL_SAM_BUFF_TOTAL_ALIGNMENTS(3)
- BL_SAM_BUFF_TRAILING_ALIGNMENTS(3)
- BL_SAM_BUFF_UNMAPPED_ALIGNMENTS(3)
- BL_SAM_CIGAR(3)
- BL_SAM_CIGAR_AE(3)
- bl_sam_copy(3)
- BL_SAM_FLAG(3)
- bl_sam_free(3)
- bl_sam_init(3)
- BL_SAM_MAPQ(3)
- BL_SAM_PNEXT(3)
- BL_SAM_POS(3)
- BL_SAM_QNAME(3)
- BL_SAM_QNAME_AE(3)
- BL_SAM_QUAL(3)
- BL_SAM_QUAL_AE(3)
- BL_SAM_QUAL_LEN(3)
- bl_sam_read(3)
- BL_SAM_RNAME(3)
- BL_SAM_RNAME_AE(3)
- BL_SAM_RNEXT(3)
- BL_SAM_RNEXT_AE(3)
- BL_SAM_SEQ(3)
- BL_SAM_SEQ_AE(3)
- BL_SAM_SEQ_LEN(3)
- bl_sam_set_cigar_ae(3)
- bl_sam_set_cigar_cpy(3)
- bl_sam_set_flag(3)
- bl_sam_set_mapq(3)
- bl_sam_set_pnext(3)
- bl_sam_set_pos(3)
- bl_sam_set_qname_ae(3)
- bl_sam_set_qname_cpy(3)
- bl_sam_set_qual(3)
- bl_sam_set_qual_ae(3)
- bl_sam_set_qual_cpy(3)
- bl_sam_set_qual_len(3)
- bl_sam_set_rname_ae(3)
- bl_sam_set_rname_cpy(3)
- bl_sam_set_rnext_ae(3)
- bl_sam_set_rnext_cpy(3)
- bl_sam_set_seq(3)
- bl_sam_set_seq_ae(3)
- bl_sam_set_seq_cpy(3)
- bl_sam_set_seq_len(3)
- bl_sam_set_tlen(3)
- BL_SAM_TLEN(3)
- bl_sam_write(3)
- BL_VCF_ALT(3)
- BL_VCF_ALT_AE(3)
- BL_VCF_ALT_COUNT(3)
- bl_vcf_call_downstream_of_alignment(3)
- bl_vcf_call_in_alignment(3)
- bl_vcf_call_out_of_order(3)
- BL_VCF_CHROM(3)
- BL_VCF_CHROM_AE(3)
- BL_VCF_FILTER(3)
- BL_VCF_FILTER_AE(3)
- BL_VCF_FORMAT(3)
- BL_VCF_FORMAT_AE(3)
- BL_VCF_FORMAT_LEN(3)
- BL_VCF_FORMAT_MAX(3)
- bl_vcf_free(3)
- bl_vcf_get_sample_ids(3)
- BL_VCF_ID(3)
- BL_VCF_ID_AE(3)
- BL_VCF_INFO(3)
- BL_VCF_INFO_AE(3)
- BL_VCF_INFO_LEN(3)
- BL_VCF_INFO_MAX(3)
- bl_vcf_init(3)
- BL_VCF_MULTI_SAMPLES(3)
- BL_VCF_MULTI_SAMPLES_AE(3)
- BL_VCF_OTHER_COUNT(3)
- bl_vcf_parse_field_spec(3)
- BL_VCF_PHRED_BUFF_SIZE(3)
- BL_VCF_PHRED_COUNT(3)
- BL_VCF_PHREDS(3)
- BL_VCF_PHREDS_AE(3)
- BL_VCF_POS(3)
- BL_VCF_QUAL(3)
- BL_VCF_QUAL_AE(3)
- bl_vcf_read_ss_call(3)
- bl_vcf_read_static_fields(3)
- BL_VCF_REF(3)
- BL_VCF_REF_AE(3)
- BL_VCF_REF_COUNT(3)
- bl_vcf_sample_alloc(3)
- BL_VCF_SAMPLE_MAX(3)
- bl_vcf_set_alt_ae(3)
- bl_vcf_set_alt_count(3)
- bl_vcf_set_alt_cpy(3)
- bl_vcf_set_chrom_ae(3)
- bl_vcf_set_chrom_cpy(3)
- bl_vcf_set_filter_ae(3)
- bl_vcf_set_filter_cpy(3)
- bl_vcf_set_format(3)
- bl_vcf_set_format_ae(3)
- bl_vcf_set_format_cpy(3)
- bl_vcf_set_format_len(3)
- bl_vcf_set_format_max(3)
- bl_vcf_set_id_ae(3)
- bl_vcf_set_id_cpy(3)
- bl_vcf_set_info(3)
- bl_vcf_set_info_ae(3)
- bl_vcf_set_info_cpy(3)
- bl_vcf_set_info_len(3)
- bl_vcf_set_info_max(3)
- bl_vcf_set_multi_samples(3)
- bl_vcf_set_multi_samples_ae(3)
- bl_vcf_set_multi_samples_cpy(3)
- bl_vcf_set_other_count(3)
- bl_vcf_set_phred_buff_size(3)
- bl_vcf_set_phred_count(3)
- bl_vcf_set_phreds(3)
- bl_vcf_set_phreds_ae(3)
- bl_vcf_set_phreds_cpy(3)
- bl_vcf_set_pos(3)
- bl_vcf_set_qual_ae(3)
- bl_vcf_set_qual_cpy(3)
- bl_vcf_set_ref_ae(3)
- bl_vcf_set_ref_count(3)
- bl_vcf_set_ref_cpy(3)
- bl_vcf_set_sample_max(3)
- bl_vcf_set_single_sample(3)
- bl_vcf_set_single_sample_ae(3)
- bl_vcf_set_single_sample_cpy(3)
- BL_VCF_SINGLE_SAMPLE(3)
- BL_VCF_SINGLE_SAMPLE_AE(3)
- bl_vcf_skip_meta_data(3)
- bl_vcf_write_ss_call(3)
- bl_vcf_write_static_fields(3)
- black_palette(3) - A palette containing solid black colors. Allegro game programming library.
- blackbox(1) - a window manager for X11
- BLACKHOLE(4)
- BLACKHOLE6(1) - A tool to find IPv6 blackholes
- BLACKLISTCTL(8) - display and change the state of blacklistd
- BLACKLISTD.CONF(5) - configuration file format for blacklistd
- BLACKLISTD(8) - block and release ports on demand to avoid DoS abuse
- BlackPixelOfScreen(3) - screen information functions and macros
- BLAME(1) - annotate RCS files
- BLASTCL3(1) - Basic Local Alignment Search Tool client
- blaster(6) - simulation of space combat
- blastesting(3) - Testing
- BLAZER_SER(8) - Driver for Megatec/Q1 protocol serial based UPS equipment
- BLAZER_USB(8) - Driver for Megatec/Q1 protocol USB based UPS equipment
- blend_image(3)
- BLENDER(1) - a full-featured 3D application
- BLIND(7) - Collection of command line video editing utilities
- BLIND-ARITHM(1) - Perform simple arithmetic on a video
- BLIND-COLOUR-CIEXYZ(1) - Convert CIE XYZ for use with blind-single-colour(1)
- BLIND-COLOUR-SRGB(1) - Convert sRGB for use with blind-single-colour(1)
- BLIND-COMPRESS(1) - Compress a video for network transmission
- BLIND-CONCAT(1) - Concatenate videos
- BLIND-CROP(1) - Extract subframes for all frames
- BLIND-CUT(1) - Retain consecutive frames
- BLIND-DECOMPRESS(1) - Decompress a video compressed by blind-compress(1)
- BLIND-DISSOLVE(1) - Fade a video by chaning it's alpha channel
- BLIND-EXTEND(1) - Add margins to a video
- BLIND-FLIP(1) - Mirror a video vertically
- BLIND-FLOP(1) - Mirror a video horizontally
- BLIND-FROM-IMAGE(1) - Convert an image to a frame
- BLIND-FROM-TEXT(1) - Convert text to a video
- BLIND-FROM-VIDEO(1) - Converts a regular, cooked video to a blind video
- BLIND-GAUSS-BLUR(1) - Apply Gaussian blur to a video
- BLIND-INVERT-LUMA(1) - Invert the luminosity of a video
- BLIND-NEXT-FRAME(1) - Extracts the next frame from a video
- BLIND-READ-HEAD(1) - Reads the head from a video
- BLIND-REPEAT(1) - Repeat a video
- BLIND-REVERSE(1) - Reverse a video
- BLIND-REWRITE-HEAD(1) - Rewrite the head of a video
- BLIND-ROTATE-180(1) - Rotate a video 180 degrees
- BLIND-ROTATE-270(1) - Rotate a video 270 degrees clockwise
- BLIND-ROTATE-90(1) - Rotate a video 90 degrees clockwise
- BLIND-SET-ALPHA(1) - Multiply the alpha channel of a video
- BLIND-SET-LUMA(1) - Multiply the luminosity of a video
- BLIND-SET-SATURATION(1) - Multiply the saturation of a video
- BLIND-SINGLE-COLOUR(1) - Generate a single-colour video
- BLIND-SKIP-PATTERN(1) - Skips frames in a video according to pattern
- BLIND-SPLIT(1) - Split a video, by frame, into multiple videos
- BLIND-STACK(1) - Overlay videos
- BLIND-TIME-BLUR(1) - Draw new frames on top of old frames with partial alpha
- BLIND-TO-IMAGE(1) - Convert a frame to an image
- BLIND-TO-TEXT(1) - Convert a video to text
- BLIND-TO-VIDEO(1) - Converts blind video to a regular video
- BLIND-TRANSLATE(1) - Perform framewise translation of a video
- BLIND-TRANSPOSE(1) - Transpose a video
- BLIND-WRITE-HEAD(1) - Writes the head of a video
- blinkbox(6) - shows a ball inside a box.
- blitspin(6) - rotate a bitmap in an interesting way
- BLITZ(1) - Securely transfer files between two workstations through NAT/Firewall.
- BLKCALC(1) - Converts between unallocated disk unit numbers and regular disk unit numbers.
- BLKCAT(1) - Display the contents of file system data unit in a disk image.
- BLKDISCARD(8) - discard sectors on a device
- BLKID(8) - locate/print block device attributes
- BLKLS(1) - List or output file system data units.
- BLKSTAT(1) - Display details of a file system data unit (i.e. block or sector)
- BLOCK(1) - temporarily block delivery of events
- BLOCK(6) - a small text based maze game
- BLOCKATTACK(6) - a puzzle game inspired by Tetris Attack
- BLOCKCHAIN(1)
- BLOCKCHAIN_BLOCKCHAIN-PLATFORM(1)
- BLOCKCHAIN_BLOCKCHAIN-PLATFORM_CHANGE-COMPARTMENT(1)
- BLOCKCHAIN_BLOCKCHAIN-PLATFORM_CREATE(1)
- BLOCKCHAIN_BLOCKCHAIN-PLATFORM_CREATE-OSN(1)
- BLOCKCHAIN_BLOCKCHAIN-PLATFORM_CREATE-PEER(1)
- BLOCKCHAIN_BLOCKCHAIN-PLATFORM_DELETE(1)
- BLOCKCHAIN_BLOCKCHAIN-PLATFORM_DELETE-OSN(1)
- BLOCKCHAIN_BLOCKCHAIN-PLATFORM_DELETE-PEER(1)
- BLOCKCHAIN_BLOCKCHAIN-PLATFORM_GET(1)
- BLOCKCHAIN_BLOCKCHAIN-PLATFORM_LIST(1)
- BLOCKCHAIN_BLOCKCHAIN-PLATFORM_LIST-BLOCKCHAIN-PLATFORM-PATCHES(1)
- BLOCKCHAIN_BLOCKCHAIN-PLATFORM_PREVIEW-SCALE(1)
- BLOCKCHAIN_BLOCKCHAIN-PLATFORM_SCALE(1)
- BLOCKCHAIN_BLOCKCHAIN-PLATFORM_START(1)
- BLOCKCHAIN_BLOCKCHAIN-PLATFORM_STOP(1)
- BLOCKCHAIN_BLOCKCHAIN-PLATFORM_UPDATE(1)
- BLOCKCHAIN_BLOCKCHAIN-PLATFORM_UPDATE-OSN(1)
- BLOCKCHAIN_BLOCKCHAIN-PLATFORM_UPDATE-PEER(1)
- BLOCKCHAIN_BLOCKCHAIN-PLATFORM_UPGRADE(1)
- BLOCKCHAIN_OSN(1)
- BLOCKCHAIN_OSN_GET(1)
- BLOCKCHAIN_OSN_LIST(1)
- BLOCKCHAIN_PEER(1)
- BLOCKCHAIN_PEER_GET(1)
- BLOCKCHAIN_PEER_LIST(1)
- BLOCKCHAIN_WORK-REQUEST(1)
- BLOCKCHAIN_WORK-REQUEST_DELETE(1)
- BLOCKCHAIN_WORK-REQUEST_GET(1)
- BLOCKCHAIN_WORK-REQUEST_LIST(1)
- BLOCKCHAIN_WORK-REQUEST-ERROR(1)
- BLOCKCHAIN_WORK-REQUEST-ERROR_LIST(1)
- BLOCKCHAIN_WORK-REQUEST-LOG-ENTRY(1)
- BLOCKCHAIN_WORK-REQUEST-LOG-ENTRY_LIST(1)
- BLOCKDEV(8) - call block device ioctls from the command line
- BLOCKDIAG(1) - generate block-diagram image file from spec-text file.
- BLOCKRAGE(6) - a falling-blocks arcade game
- blocktube(6) - draws a swirling, falling tunnel of reflective slabs
- Blog::Spam::API(3) - A description of Blog-Spam API.
- Blog::Spam::Plugin::00blacklist(3) - Reject comments from known-bad IP addresses.
- Blog::Spam::Plugin::00whitelist(3) - Always permit comments from some IP addresses.
- Blog::Spam::Plugin::badip(3) - Reject comments from known-bad IP addresses.
- Blog::Spam::Plugin::bayesian(3) - Bayesian analysis of submitted comments.
- Blog::Spam::Plugin::bogusip(3) - Reject comments from bogus IP addresses.
- Blog::Spam::Plugin::drone(3) - Lookup comment submissions in dronebl.org
- Blog::Spam::Plugin::dropme(3) - A plugin for self-dropping comments.
- Blog::Spam::Plugin::emailtests(3) - Reject email addresses which are bogus.
- Blog::Spam::Plugin::hashcash(3) - Block comments which have bogus Wordpress values
- Blog::Spam::Plugin::httpbl(3) - Lookup submitters in the HTTP;bl list
- Blog::Spam::Plugin::logger(3) - Log the contents of our messages.
- Blog::Spam::Plugin::lotsaurls(3) - Reject comments containing multiple URLs.
- Blog::Spam::Plugin::multilinks(3) - Reject opportunistic use of URLs.
- Blog::Spam::Plugin::rdns(3) - Reject content from hosts with no RDNS.
- Blog::Spam::Plugin::requiremx(3) - Reject email addresses to have an MX record.
- Blog::Spam::Plugin::Sample(3) - A sample plugin.
- Blog::Spam::Plugin::sfs(3) - Lookup comment submissions in stopforumspam.com
- Blog::Spam::Plugin::size(3) - Size-Test submitted comments.
- Blog::Spam::Plugin::stopwords(3) - Reject comments which contain known-bad words.
- Blog::Spam::Plugin::strong(3) - Block comments which have undue strong tags.
- Blog::Spam::Plugin::surbl(3) - Discard comments with surbl-listed URLs.
- Blog::Spam::Plugin::wordcount(3) - Discard comments with too few words.
- Blog::Spam::Server(3) - An RPC server which detects comment spam.
- blogbench(8) - a realistic filesystem benchmark
- BLOGSPAM(1) - An RPC server for testing blog comments
- Bloom::Filter(3) - Sample Perl Bloom filter implementation
- blow(1) - transfer data over a TCP connection
- Blowfish_PP(3) - Blowfish encryption algorithm implemented purely in Perl
- BLS(8) - Bareos's 'Volume LS'
- blt(1) - Wrapper for all biolibc-tools subcommands
- blt chrom-lens(1)
- Blt_Tree(3) - Tree data object.
- Blt_TreeCreate(3) - Create tree data object.
- Blt_TreeCreateNode(3) - Creates a node in a tree data object.
- Blt_TreeDeleteNode(3) - Deletes a node and its descendants.
- Blt_TreeExists(3) - Indicates if a tree exists.
- Blt_TreeGetNode(3) - Finds the node from the ID.
- Blt_TreeGetToken(3) - Grabs a token associated with existing tree data object.
- Blt_TreeName(3) - Returns the name of the tree data object.
- Blt_TreeNodeId(3) - Returns the node serial number.
- Blt_TreeReleaseToken(3) - Releases token associated with tree object.
- bltdebug(n) - print Tcl commands before execution
- bluecloth(1) - convert Markdown input to HTML
- BLUEFISH(1) - editor for experienced web designers and programmers
- BLUEGPS(1) - datalog download tool for Royaltek RBT-3000 GPS
- BLUEMOON(6) - Blue Moon card solitaire
- BLUETOOTH(3) - Bluetooth routines
- BLUETOOTH.DEVICE.CONF(5) - Bluetooth device configuration file
- BLUETOOTH-CONFIG(8) - a script to manage config files for the bluetooth sub system
- BMAKE(1) - maintain program dependencies
- BMC-DEVICE(8) - perform advanced BMC commands
- BMC-INFO(8) - display BMC information
- bmc-watchdog(8) - BMC watchdog timer daemon and control utility
- BMF(1) - efficient Bayesian mail filter
- BMFCONV(1) - Database converter for bmf
- bmon(8) - bandwidth monitor and rate estimator
- BMORE(1) - browse through a binary file
- bmp_read_line(3) - Direct access bank switching line selection for reading. Allegro game programming library.
- bmp_unwrite_line(3) - Direct access bank switching line release. Allegro game programming library.
- bmp_write_line(3) - Direct access bank switching line selection for writing. Allegro game programming library.
- bmptopnm(1) - convert a BMP(DIB) file into a portable anymap
- BN_ADD(3) - arithmetic operations on BIGNUMs
- BN_ADD(3ossl) - arithmetic operations on BIGNUMs
- BN_ADD_WORD(3) - arithmetic functions on BIGNUMs with integers
- BN_ADD_WORD(3ossl) - arithmetic functions on BIGNUMs with integers
- BN_BLINDING_NEW(3) - blinding related BIGNUM functions
- BN_BLINDING_NEW(3ossl) - blinding related BIGNUM functions
- BN_BN2BIN(3) - format conversions
- BN_BN2BIN(3ossl) - format conversions
- BN_CMP(3) - BIGNUM comparison and test functions
- BN_CMP(3ossl) - BIGNUM comparison and test functions
- BN_COPY(3) - copy BIGNUMs
- BN_COPY(3ossl) - copy BIGNUMs
- BN_CTX_NEW(3) - allocate and free BN_CTX structures
- BN_CTX_NEW(3ossl) - allocate and free BN_CTX structures
- BN_CTX_START(3) - use temporary BIGNUM variables
- BN_CTX_START(3ossl) - use temporary BIGNUM variables
- BN_DUMP(3) - BIGNUM library internal functions
- BN_GENERATE_PRIME(3) - generate primes and test for primality
- BN_GENERATE_PRIME(3ossl) - generate primes and test for primality
- BN_MOD_EXP_MONT(3ossl) - Montgomery exponentiation
- BN_MOD_INVERSE(3) - compute inverse modulo n
- BN_MOD_INVERSE(3ossl) - compute inverse modulo n
- BN_MOD_MUL_MONTGOMERY(3) - Montgomery multiplication
- BN_MOD_MUL_MONTGOMERY(3ossl) - Montgomery multiplication
- BN_MOD_MUL_RECIPROCAL(3) - modular multiplication using reciprocal
- BN_MOD_MUL_RECIPROCAL(3ossl) - modular multiplication using reciprocal
- BN_NEW(3) - allocate and free BIGNUMs
- BN_NEW(3ossl) - allocate and free BIGNUMs
- BN_NUM_BYTES(3) - get BIGNUM size
- BN_NUM_BYTES(3ossl) - get BIGNUM size
- BN_RAND(3) - generate pseudo-random number
- BN_RAND(3ossl) - generate pseudo-random number
- BN_SECURITY_BITS(3) - returns bits of security based on given numbers
- BN_SECURITY_BITS(3ossl) - returns bits of security based on given numbers
- BN_SET_BIT(3) - bit operations on BIGNUMs
- BN_SET_BIT(3ossl) - bit operations on BIGNUMs
- BN_SET_FLAGS(3) - enable and inspect flags on BIGNUM objects
- BN_SET_NEGATIVE(3) - change and inspect the sign of a BIGNUM
- BN_SWAP(3) - exchange BIGNUMs
- BN_SWAP(3ossl) - exchange BIGNUMs
- BN_ZERO(3) - BIGNUM assignment operations
- BN_ZERO(3ossl) - BIGNUM assignment operations
- BNBOT(1) - Battle.net text-based chat bot client
- BNCFREQ(1) - Compute Information Content based on British National Corpus (World Edition)
- BNCHAT(1) - Battle.net text-based chat client
- BNETD(1) - Unix Battle.net daemon
- BNETD.CONF(5) - configuration for the Unix Battle.net daemon
- BNFTP(1) - Battle.net file transfer client
- BNI2TGA(1) - convert a Battle.net icon file to a Targa file
- BNIBUILD(1) - build a Battle.net icon file from a directory of Targa icon files
- BNIEXTRACT(1) - extract a directory of Targa icon files from a Battle.net icon file
- BNILIST(1) - list contents of a Battle.net icon file
- BNPASS(1) - bnetd password utility
- BNPROXY(1) - bnetd tracking daemon
- BNSTAT(1) - Battle.net statisics client
- bntext(5) - messages for the Unix Battle.net daemon
- BNXT(4) - Broadcom NetXtreme-C/NetXtreme-E Family Ethernet driver
- BO(nged) - Used to create or retrieve binary opaque objects.
- bochs(1) - Portable x86 Emulator.
- bochs-dlx(1) - Runs DLX-Linux under the Bochs x86 Emulator
- bochsrc(5) - Configuration file for Bochs.
- body(n) - change the body for a class method/proc
- BOGGLE(6) - word search game
- BOGOFILTER(1) - fast Bayesian spam filter
- BOGOLEXER(1) - Utility program for separating email messages into tokens
- BOGOM(8) - simple sendmail milter to interface bogofilter
- BOGOSORT(1) - sorts or doesn't sort files or standard input
- BOGOTUNE(1) - find optimum parameter settings for bogofilter
- BOGOUPGRADE(1) - upgrades bogofilter database to current version
- BOGOUTIL(1) - Dumps, loads, and maintains bogofilter database files
- BOLT(nged) - Creates a BRL-CAD .g file containing bolts.
- BOMBARDMENT(1) - Run siege with an ever-increasing number of users
- bon_csv2html(1)
- bond_target(3)
- Bonds(1) - Example of bond pricing
- BONNIE(1) - Performance Test of Filesystem I/O
- bonnie++(8) - program to test hard drive performance.
- bookman(1)
- BOOM.CFG(5) - Configuration file for PrBoom v2.1.0 onwards
- BOOT.CONFIG(5) - Configuration file for the boot blocks
- BOOT(8) - system bootstrapping procedures
- BOOT(9)
- BOOT0CFG(8) - boot manager installation/configuration utility
- BOOT1.EFI(8) - UEFI chain loader
- BOOTPARAMD(8) - boot parameter server
- BOOTPARAMS(5) - boot parameter database
- BOOTPD(8) - Internet Boot Protocol server/gateway
- BOOTPEF(8) - BOOTP Extension File compiler
- BOOTPTAB(5) - Internet Bootstrap Protocol server database
- BOOTPTEST(8) - send BOOTP queries and print responses
- Border::Style(3) - Border style structure
- Border::Style::Role(3) - Role for class wanting to support border styles
- BorderStyle(3) - Border styles
- BorderStyle::ASCII::None(3) - No borders, but row separator is still drawn using dashes
- BorderStyle::ASCII::SingleLine(3) - Single line border with ASCII characters
- BorderStyle::ASCII::SingleLineDoubleAfterHeader(3) - Just like ASCII::SingleLine but uses double line to separate header row and first data row
- BorderStyle::ASCII::SingleLineHorizontalOnly(3) - Single line border with ASCII characters, horizontal only
- BorderStyle::ASCII::SingleLineInnerOnly(3) - Single line border with ASCII characters, between columns only
- BorderStyle::ASCII::SingleLineOuterOnly(3) - Single line border with ASCII characters, outer borders only
- BorderStyle::ASCII::SingleLineVerticalOnly(3) - Single line border with ASCII characters, vertical only
- BorderStyle::ASCII::Space(3) - Space as borders, but data row separator is still drawn using dashes
- BorderStyle::ASCII::SpaceInnerOnly(3) - No borders, but columns are still separated using spaces and data row separator is still drawn using dashes
- BorderStyle::BoxChar::None(3) - No borders, but data row separator is still drawn using horizontal line
- BorderStyle::BoxChar::SingleLine(3) - Single line border with box-drawing characters
- BorderStyle::BoxChar::SingleLineHorizontalOnly(3) - Single line border with box-drawing characters, horizontal only
- BorderStyle::BoxChar::SingleLineInnerOnly(3) - Single line border with box-drawing characters, between columns only
- BorderStyle::BoxChar::SingleLineOuterOnly(3) - Single line border with box-drawing characters, outer borders only
- BorderStyle::BoxChar::SingleLineVerticalOnly(3) - Single line border with box-drawing characters, vertical only
- BorderStyle::BoxChar::Space(3) - Space as borders, but data row separator is still drawn using horizontal line
- BorderStyle::BoxChar::SpaceInnerOnly(3) - No borders, but columns are still separated using spaces and data row separator is still drawn using horizontal line
- BorderStyle::Test::CustomChar(3)
- BorderStyle::Test::Labeled(3)
- BorderStyle::Text::ANSITable::OldCompat::Default::bold(3) - UTF8::SingleLineBold border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::brick(3) - UTF8::Brick border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::bricko(3) - UTF8::BrickOuterOnly border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::csingle(3) - UTF8::SingleLineCurved border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::double(3) - UTF8::DoubleLine border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::none_ascii(3) - ASCII::None border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::none_boxchar(3) - BoxChar::None border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::none_utf8(3) - UTF8::None border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::single_ascii(3) - ASCII::SingleLine border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::single_boxchar(3) - BoxChar::SingleLine border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::single_utf8(3) - UTF8::SingleLine border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::singleh_ascii(3) - ASCII::SingleLineHorizontalOnly border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::singleh_boxchar(3) - BoxChar::SingleLineHorizontalOnly border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::singleh_utf8(3) - UTF8::SingleLineHorizontalOnly border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::singlei_ascii(3) - ASCII::SingleLineInnerOnly border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::singlei_boxchar(3) - BoxChar::SingleLineInnerOnly border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::singlei_utf8(3) - UTF8::SingleLineInnerOnly border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::singleo_ascii(3) - ASCII::SingleLineOuterOnly border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::singleo_boxchar(3) - BoxChar::SingleLineOuterOnly border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::singleo_utf8(3) - UTF8::SingleLineOuterOnly border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::singlev_ascii(3) - ASCII::SingleLineVerticalOnly border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::singlev_boxchar(3) - BoxChar::SingleLineVerticalOnly border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::singlev_utf8(3) - UTF8::SingleLineVerticalOnly border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::space_ascii(3) - ASCII::Space border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::space_boxchar(3) - BoxChar::Space border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::space_utf8(3) - UTF8::Space border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::spacei_ascii(3) - ASCII::SpaceInnerOnly border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::spacei_boxchar(3) - BoxChar::SpaceInnerOnly border style (with old name)
- BorderStyle::Text::ANSITable::OldCompat::Default::spacei_utf8(3) - UTF8::SpaceInnerOnly border style (with old name)
- BorderStyle::UTF8::Brick(3) - Single-line, bold on bottom right to give illusion of depth
- BorderStyle::UTF8::BrickOuterOnly(3) - Single-line (outer only), bold on bottom right to give illusion of depth
- BorderStyle::UTF8::DoubleLine(3) - Double-line border with UTF8 characters
- BorderStyle::UTF8::None(3) - No borders, but data row separator is still drawn using horizontal line
- BorderStyle::UTF8::SingleLine(3) - Single-line border with UTF8 characters
- BorderStyle::UTF8::SingleLineBold(3) - Bold single-line border with UTF8 characters
- BorderStyle::UTF8::SingleLineBoldHeader(3) - Single-line border (header box bold) with UTF8 characters
- BorderStyle::UTF8::SingleLineCurved(3) - Single-line border with UTF8 characters, curved edges
- BorderStyle::UTF8::SingleLineDoubleAfterHeader(3) - Just like UTF8::SingleLine but uses double line to separate header row and first data row
- BorderStyle::UTF8::SingleLineHorizontalOnly(3) - Single line border with box-drawing characters, horizontal only
- BorderStyle::UTF8::SingleLineInnerOnly(3) - Single line border with UTF8 characters, between columns only
- BorderStyle::UTF8::SingleLineOuterOnly(3) - Single line border with UTF8 characters, outer borders only
- BorderStyle::UTF8::SingleLineVerticalOnly(3) - Single line border with UTF8 characters, vertical only
- BorderStyle::UTF8::Space(3) - Space as borders, but data row separator is still drawn using horizontal line
- BorderStyle::UTF8::SpaceInnerOnly(3) - No borders, but columns are still separated using spaces and data row separator is still drawn using horizontal line
- BorderStyleBase(3) - A suitable base class for most BorderStyle::* modules
- BorderStyleBase::Constructor(3) - Provide new()
- BorderStyleRole::Source::ASCIIArt(3) - Get border characters from ASCII art
- BorderStyleRole::Source::Hash(3) - Get border characters from %CHARS (or @MULTI_CHARS) package variable
- BorderStyleRole::Spec::Basic(3) - Required methods for all BorderStyle::* modules
- BorderStyleRole::Transform::BoxChar(3) - Emit proper escape code to display box characters
- BorderStyleRole::Transform::InnerOnly(3) - Strip outer border characters
- BorderStyleRole::Transform::OuterOnly(3) - Strip inner border characters
- BorderStyles::Standard(3) - A standard collection of border styles
- BOSSKILL(8) - send a signal to your boss, or terminate your boss
- BOT(nged) - Perform operations on a Bag of Triangles (BoT) primitive.
- Bot::BasicBot(3) - simple irc bot baseclass
- Bot::Training(3) - Plain text training material for bots like Hailo and AI::MegaHAL
- Bot::Training::MegaHAL(3) - Provide megahal.trn via Bot::Training
- Bot::Training::StarCraft(3) - Provide starcraft.trn via Bot::Training
- BOT_CONDENSE(nged) - Used to eliminate unused vertices from a BOT primitive.
- BOT_DECIMATE(nged) - Reduces the number of triangles in the
- BOT_DUMP(1) - export polygonal BoT primitives without performing evaluation
- BOT_FACE_FUSE(nged) - Eliminates duplicate faces from a BOT solid.
- BOT_FACE_SORT(nged) - Sorts the list of triangles that constitutes the BOT primitive to optimize it for raytracing with the specified number of triangles per piece.
- BOT_FLIP(nged) - Reverse (i.e. flip) all the facet normals within a BOT primitive.
- BOT_SPLIT(nged) - Split a single BOT primitive, containing disjoint groups of facets, into multiple BOT primitives, one BOT per disjoint group.
- BOT_SYNC(nged) - Synchronizes the normals of all facets within a BOT primitive so they are all in the same direction.
- BOT_VERTEX_FUSE(nged) - Used to eliminate duplicate vertices from a BOT solid.
- BOTAN(1) - Botan command line util
- BOT-TRAINING(1) - Command-line interface Bot::Training
- bouboule(6) - draws spinning 3D blobs
- Boulder(3) - An API for hierarchical tag/value structures
- Boulder::Blast(3) - Parse and read BLAST files
- Boulder::Blast::NCBI(3) - Parse and read NCBI BLAST files
- Boulder::Blast::WU(3) - Parse and read WU-BLAST files
- Boulder::Genbank(3) - Fetch Genbank data records as parsed Boulder Stones
- Boulder::LocusLink(3) - Fetch LocusLink data records as parsed Boulder Stones
- Boulder::Medline(3) - Fetch Medline data records as parsed Boulder Stones
- Boulder::Omim(3) - Fetch Omim data records as parsed Boulder Stones
- Boulder::Store(3) - Simple persistent storage for Stone tag/value objects
- Boulder::Stream(3) - Read and write tag/value data from an input stream
- Boulder::String(3) - Read and write tag/value data from a string.
- Boulder::Swissprot(3) - Fetch SwissProt data records as parsed Boulder Stones
- Boulder::Unigene(3) - Fetch Unigene data records as parsed Boulder Stones
- Boulder::XML(3) - XML format input/output for Boulder streams
- BOUNCE(5) - Postfix bounce message template format
- BOUNCE(8) - Postfix delivery status reports
- BOUNCED(8) - Mailing List Bounce Processing Daemon for Sympa
- bouncesaying(1) - perhaps bounce each incoming message
- BounceURL(3) - Allow off-page links in POD to point to a URL
- bouncingcow(6) - a happy cow on a trampoline in 3D. Moo.
- BOUNDARY_FOPEN(3) - read from a stream until a boundary string is matched
- boxed(6) - draws a box full of 3D bouncing balls that explode.
- boxfit(6) - fills space with a gradient of growing boxes or circles.
- BOZOHTTPD(8) - hyper text transfer protocol version 1.1 daemon
- BP_AACOMP(1) - amino acid composition of protein sequences
- BP_BIOFETCH_GENBANK_PROXY(1) - Caching BioFetch-compatible web proxy for GenBank
- BP_BIOFLAT_INDEX(1) - index sequence files using Bio::DB::Flat
- BP_BIOGETSEQ(1) - sequence retrieval using OBDA registry
- BP_DBSPLIT(1) - script to split an input set of database(s) into smaller pieces
- BP_DOWNLOAD_QUERY_GENBANK(1) - script to query Genbank and retrieve records
- BP_EXTRACT_FEATURE_SEQ(1) - extract the corresponding sequence for a specified feature type
- BP_FASTAM9_TO_TABLE(1) - turn FASTA -m 9 output into NCBI -m 9 tabular output
- BP_FETCH(1) - fetches sequences from bioperl indexed databases
- BP_FILTER_SEARCH(1) - filters searchio results, outputting a tab delimited summary
- BP_FIND-BLAST-MATCHES(1) - extract DNA sequences based on BLAST hits
- BP_FLANKS(1) - finding flanking sequences for a variant in a sequence position
- BP_GCCALC(1) - GC content of nucleotide sequences
- BP_GENBANK2GFF3(1) - Inconsistent order? Date: 2005-07-15 19:51:48 GMT
- BP_INDEX(1) - indexes files for use by bp_fetch.pl
- BP_LOCAL_TAXONOMYDB_QUERY(1) - query a local TaxonomyDB for species or taxonid
- BP_MAKE_MRNA_PROTEIN(1) - Convert an input mRNA/cDNA sequence into protein
- BP_MASK_BY_SEARCH(1) - mask sequence(s) based on its alignment results
- BP_MRTRANS(1) - implement a transformer of alignments from protein to mrna coordinates
- BP_MUTATE(1) - randomly mutagenize a single protein or DNA sequence
- BP_NEXUS2NH(1) - convert nexus format trees (from PAUP* and MrBayes) to new hampshire
- BP_NRDB(1) - a script to emulate Warren Gish's nrdb, make a unique sequence database from a set of input databases
- BP_OLIGO_COUNT(1) - oligo count and frequency
- BP_PROCESS_GADFLY(1) - Massage Gadfly/FlyBase GFF files into a version suitable for the Generic Genome Browser
- BP_PROCESS_SGD(1) - Massage SGD annotation flat files into a version suitable for the Generic Genome Browser
- BP_QUERY_ENTREZ_TAXA(1) - query Entrez taxonomy database and print out information
- BP_REVTRANS-MOTIF(1) - Reverse translate a Profam-like protein motif
- BP_SEARCH2ALNBLOCKS(1) - Turn SearchIO parseable reports(s) into a set of aligned blocks
- BP_SEARCH2GFF(1) - turn a SearchIO report into GFF
- BP_SEARCH2TABLE(1) - turn SearchIO parseable reports into tab delimited format like NCBI's -m 9
- BP_SEARCH2TRIBE(1) - Turn SearchIO parseable reports(s) into TRIBE matrix
- BP_SEQ_LENGTH(1) - lists the number of bases and number of sequences in specified sequence database files
- BP_SEQCONVERT(1) - generic BioPerl sequence format converter
- BP_SEQCUT(1) - cut FASTA sequences with a given range
- BP_SEQPART(1) - Takes one or more sequence files and splits them into a number of load balanced files.
- BP_SEQRET(1) - bioperl implementation of sequence fetch from local db (like EMBOSS seqret)
- BP_SEQRETSPLIT(1) - split a sequence (or stream) into a single file per sequence
- BP_SPLIT_SEQ(1) - splits a sequence into equal sized chunks with an optional overlapping range
- BP_SREFORMAT(1) - convert sequence formats
- BP_TAXID4SPECIES(1) - simple script which returns the NCBI Taxonomic id for a requested species
- BP_TAXONOMY2TREE(1) - Building a taxonomic tree based on the full lineages of a set of species names
- BP_TRANSLATE_SEQ(1) - translates a sequence
- BP_TREE2PAG(1) - convert Bio::TreeIO parseable format trees to pagel format
- BP_UNFLATTEN_SEQ(1) - unflatten a genbank or genbank-style feature file into a nested SeqFeature hierarchy
- bpatch(1) - binary patch and dump file utility
- BPF(4) - Berkeley Packet Filter
- BPF(9) - Berkeley Packet Filter
- bpluginfo(8) - Bareos Plugin information utility
- BPRINTF(1) - formatted output with named arguments
- BPSYNC(1) - Synchronize BashPodder subscriptions with gpodder.net
- BPYTHON(1) - a fancy {curtsies, curses, urwid} interface to the Python interactive interpreter
- BPYTHON-CONFIG(5) - user configuration file for bpython
- BRACKUP(1) - do a backup using Brackup
- Brackup(3) - Flexible backup tool. Slices, dices, encrypts, and sprays across the net.
- Brackup::Chunker::MP3(3) - an mp3-aware file chunker
- Brackup::Config(3) - configuration parsing/etc
- Brackup::Dict::Null(3) - noop key-value dictionary implementation, discarding everything it receives
- Brackup::Dict::SQLite(3) - key-value dictionary implementation, using a SQLite database for storage
- Brackup::Dict::SQLite2(3) - key-value dictionary implementation, using a SQLite database for storage (lighter/slower version of Brackup::Dict::SQLite)
- Brackup::DigestCache(3) - cache digests of file and chunk contents
- Brackup::InventoryDatabase(3) - track what chunks are already on a target
- Brackup::Manual::Overview(3) - how Brackup works, and how to use it
- Brackup::Mount(3) - Mount a backup as a usable filesystem using FUSE
- Brackup::Root(3) - describes the source directory (and options) for a backup
- Brackup::Target(3) - describes the destination for a backup
- Brackup::Target::Amazon(3) - backup to Amazon's S3 service
- Brackup::Target::CloudFiles(3) - backup to Rackspace's CloudFiles Service
- Brackup::Target::Filesystem(3) - backup to a locally mounted filesystem
- Brackup::Target::Ftp(3) - backup to an FTP server
- Brackup::Target::GoogleAppEngine(3) - backup to the App Engine target server
- Brackup::Target::Riak(3) - backup to a Riak key-value store
- Brackup::Target::Sftp(3) - backup to an SSH/SFTP server
- BRACKUP-MOUNT(1) - mount a backup as a filesystem using FUSE
- BRACKUP-RESTORE(1) - The brackup restore tool.
- BRACKUP-TARGET(1) - Manage your backup targets
- BRACKUP-VERIFY-INVENTORY(1) - utility to validate brackup inventory entries against the target
- braid(6) - draws random color-cycling braids around a circle
- BRAND.4TH(8) - FreeBSD ASCII art boot module
- BRANDELF(1) - mark an ELF binary for a specific ABI
- Brannigan(3) - Comprehensive, flexible system for validating and parsing input, mainly targeted at web applications.
- Brannigan::Examples(3) - Example schemes, input and output for Brannigan.
- Brannigan::Tree(3) - A Brannigan validation/parsing scheme tree, possibly built from a series of inherited schemes.
- Brannigan::Validations(3) - Built-in validation methods for Brannigan.
- BRASERO(1) - Simple and easy to use CD/DVD burning application for the Gnome Desktop
- BREAD(3) - read and write blocks of a UFS file system
- Bread::Board(3) - A solderless way to wire up your application components
- Bread::Board::BlockInjection(3) - service instantiated via custom subroutine
- Bread::Board::ConstructorInjection(3) - service instantiating objects via a constructor
- Bread::Board::Container(3) - A container for services and other containers
- Bread::Board::Container::FromParameterized(3) - container with weak parent reference
- Bread::Board::Container::Parameterized(3) - A parameterized container
- Bread::Board::Declare(3) - create Bread::Board containers as normal Moose objects
- Bread::Board::Declare::BlockInjection(3) - subclass of Bread::Board::BlockInjection for Bread::Board::Declare
- Bread::Board::Declare::ConstructorInjection(3) - subclass of Bread::Board::ConstructorInjection for Bread::Board::Declare
- Bread::Board::Declare::Literal(3) - subclass of Bread::Board::Literal for Bread::Board::Declare
- Bread::Board::Declare::Meta::Role::Attribute(3) - base attribute metarole for Bread::Board::Declare
- Bread::Board::Declare::Meta::Role::Attribute::Container(3) - attribute metarole for container attributes in Bread::Board::Declare
- Bread::Board::Declare::Meta::Role::Attribute::Service(3) - attribute metarole for service attributes in Bread::Board::Declare
- Bread::Board::Declare::Meta::Role::Class(3) - class metarole for Bread::Board::Declare
- Bread::Board::Declare::Meta::Role::Instance(3)
- Bread::Board::Declare::Role::Object(3)
- Bread::Board::Declare::Role::Service(3) - role for Bread::Board::Service objects
- Bread::Board::Dependency(3) - dependency for a service
- Bread::Board::Dumper(3) - Pretty printer for visualizing the layout of your Bread::Board
- Bread::Board::LifeCycle(3) - base lifecycle role
- Bread::Board::LifeCycle::Singleton(3) - service role for singleton lifecycle
- Bread::Board::LifeCycle::Singleton::WithParameters(3) - singleton lifecycle role for a parameterized service
- Bread::Board::Literal(3) - service providing a literal value
- Bread::Board::Manual(3) - A manual for Bread::Board
- Bread::Board::Manual::Concepts(3) - An overview of the concepts in Bread::Board
- Bread::Board::Manual::Concepts::Advanced(3) - An overview of some of the more advanced Bread::Board concepts
- Bread::Board::Manual::Concepts::Typemap(3) - An overview of the typemapping feature
- Bread::Board::Manual::Example(3) - A set of examples of Bread::Board usage
- Bread::Board::Manual::Example::FormSensible(3) - A Form::Sensible and Catalyst example.
- Bread::Board::Manual::Example::LogDispatch(3) - An example of composing a dynamic Log::Dispatch object.
- Bread::Board::Service(3) - Base service role
- Bread::Board::Service::Alias(3) - aliases another service
- Bread::Board::Service::Deferred(3) - Helper for holding a service that is not quite constructed yet
- Bread::Board::Service::Deferred::Thunk(3) - Helper for using services with incomplete parameters
- Bread::Board::Service::Inferred(3) - Helper for inferring a service from a Moose object
- Bread::Board::Service::WithClass(3) - role for services returning instances of a given class
- Bread::Board::Service::WithConstructor(3)
- Bread::Board::Service::WithDependencies(3) - Services with dependencies
- Bread::Board::Service::WithParameters(3) - Services with parameters
- Bread::Board::SetterInjection(3) - service instantiating objects via setter functions
- Bread::Board::Traversable(3) - role for traversing a container service tree
- Bread::Board::Types(3) - types and coercions for Bread::Board
- Breadcrumbs(3) - module to produce HTML 'breadcrumb trails'.
- BREAK(1) - stop the current inner loop
- break(n) - Abort looping command
- BREAKLINE(3) - breaks a buffer into fields
- BREAKPOINT(1) - launch debug mode
- BRECV(3) - receives data from a bytestream socket
- BRECVL(3) - receives data from a bytestream socket
- breduce(1) - read a portable bitmap and reduce it to 1/N
- BREGEX(1) - Bareos's 'regex' engine
- BREGEX(8) - Bacula's 'regex' engine
- BREP(nged) - This command does a boundary representation which represents the solid geometry by describing the topology and corresponding geometry.
- BREP_SIMPLE(1) - constructs a simple boundary representation (b-rep) twisted cube
- BRIDGE(4)
- BRISTOL(1) - a synthesiser emulation package.
- BRISTOLJACKSTATS(1) - ancillary program for bristol
- BRK(2) - change data segment size
- BRLCAD(1) - BRL-CAD programs for solid modeling, raytracing, graphics, and image processing
- BRLCAD-CONFIG(1) - script to get information about the installed version of BRL-CAD
- BRLMAN(1) - a manual page viewer for BRL-CAD
- broadcast_dialog_message(3) - Broadcasts a message to all the objects in the active dialog. Allegro game programming library.
- BROADWAYD(1) - Broadway display server
- broot(1) - Tree view, file manager, configurable launcher
- BROWNFREQ(1) - Compute Information Content from the Brown Corpus
- Browse(3) - Perl extension to browse tables.
- BrowseEntry(3) - entry widget with popup choices.
- BROWSER(1) - File manager and image viewer
- Browser::Open(3) - open a browser in a given URL
- BRRRIP(1) - rip SNES BRR sound samples
- bruteblock(8) - utility to block bruteforce attacks
- brz(1) - Breezy next-generation distributed version control
- BS(6) - battleships game
- BS::Event(3) - A class that provides an event callback interface
- BSb_back_solve(3) - Backward triangular matrix solution on a block of right hand sides
- BSb_backward(3) - Backward triangular matrix multiplication on a block of vectors
- BSb_for_solve(3) - Forward triangular matrix solution on a block of vectors
- BSb_forward(3) - Forward triangular matrix multiplication on a block of vectors
- BSback_solve(3) - Backward triangular matrix solution on a single vector
- BSback_solve1(3) - Backward triangular matrix solution on a single vector
- BSbackward(3) - Backward triangular matrix multiplication on a single vector
- BSbackward1(3) - Backward triangular matrix multiplication on a single vector
- BSbjacobi(3) - Apply the block Jacobi preconditioner
- BSCAN(8) - Bareos's 'Scan volumes'
- BScopy_nz(3) - Copy the nonzero values from one matrix to another
- BScopy_par_mat(3) - Create of copy of a matrix
- BScreate_ctx(3) - Create the execution time context for the package
- BSCRYPTO(8) - Bareos's 'SCSI Crypto'
- BSctx_print(3) - Print out the current state of the context.
- BSctx_set_cs(3) - Set the maximum clique size allowed
- BSctx_set_ct(3) - Set the type of coloring
- BSctx_set_err(3) - Set the type of error checking
- BSctx_set_guess(3) - Set whether to use zero as the initial vector for the iterative method or use the values given in the vector passed to the iterative method.
- BSctx_set_id(3) - Set the processor id
- BSctx_set_is(3) - Set the maximum i-node size allowed
- BSctx_set_max_it(3) - Set the maximum number of iterations to be allowed by the iterative solver.
- BSctx_set_method(3) - Set the iterative method to be used.
- BSctx_set_np(3) - Set the number of processors
- BSctx_set_num_rhs(3) - Set the number of RHSs to be solved for.
- BSctx_set_pr(3) - Set whether information on reordering should be printed
- BSctx_set_pre(3) - The preconditioner to be used by the iterative solver.
- BSctx_set_print_log(3) - Set whether logging information is printed
- BSctx_set_ps(3) - Set the processor set
- BSctx_set_restart(3) - Set the number of vectors stored by GMRES
- BSctx_set_rt(3) - Set whether information for fast future permutations
- BSctx_set_scaling(3) - Set whether or not the linear system should solved or not.
- BSctx_set_si(3) - Set whether or not inodes and cliques will be found
- BSctx_set_tol(3) - Set the relative residual tolerance for the iterative method.
- BSD.ARDUINO.MK(7)
- BSD(n) - Tcl interface to various BSD UNIX functions
- BSD::devstat(3) - interface to devstat(3) API
- BSD::getloadavg(3) - Perl Interface to getloadavg (3)
- BSDCAT(1) - expand files to standard output
- BSDCONFIG(8) - system configuration utility
- bsdconv(3) - Perl extension for bsdconv library
- BSDCRASHTAR(8) - archive kernel crash files
- BSDE_GET_RULE(3) - file system firewall rules list management
- BSDE_GET_RULE_COUNT(3) - file system firewall statistics
- BSDE_PARSE_RULE(3) - parse file system firewall rules
- BSDE_RULE_TO_STRING(3) - convert a ugidfw rule into its text representation
- BSDFAN(1) - a simple utility to manage thinkpads fan on FreeBSD
- BSDHWMON(8) - hardware sensor monitoring utility
- BSDIFF(1) - generate a patch between two binary files
- BSDINSTALL(8) - system installer
- BSDISKS.CONF(5) - configuration file for the bsdisks utility
- BSDISKS(8) - daemon implementing the UDisks2 service
- bsdl2jtag(1) - UrJTAG declaration file conversion
- BSDLABEL(8) - read and write BSD label
- BSDTAR(1)
- BSEARCH(1) - manages one-time passwords
- BSEARCH(3) - binary search of a sorted table
- BSeasy_A(3) - Given A in a standard numerical format, construct the sparse A that we need for BlockSolve. This routine is particularly useful for matrices created in Fortran. The rows on a processor must be contiguous in the global numbering. If they are not, then other BlockSolve routines must be called to construct the matrix for BlockSolve. Arrays are indexed starting with 0. The values in a row must be sorted according to column number.
- BSEND(3) - sends data to a socket
- BSENDL(3) - sends data to a socket
- BSfactor(3) - Compute the incomplete factor of a matrix
- BSfinalize(3) - Finalizes BlockSolve and MPI. Prints the log stuff if MLOG was defined.
- BSfor_solve(3) - Forward triangular matrix solution on a single vector
- BSfor_solve1(3) - Forward triangular matrix solution on a single vector
- BSforward(3) - Forward triangular matrix multiplication on a single vector
- BSforward1(3) - Forward triangular matrix multiplication on a single vector
- BSfree_comm(3) - Free the compiled communication pattern
- BSfree_copy_par_mat(3) - Free a copy of a sparse matrix (parallel format)
- BSfree_ctx(3) - Free the context
- BSfree_easymat(3) - Free a sparse matrix allocated in BSeasy_mat
- BSfree_off_map(3) - Free an offset mapping
- BSfree_par_mat(3) - Free a sparse matrix (parallel format)
- BSfree_reperm(3) - Free the reperm data structure
- BSfree_spmat(3) - Free a sparse matrix (original format)
- BSfreeg2l(3) - Free a global to local mapping
- BSfreel2g(3) - Free a local to global mapping
- BSget_diag(3) - Retrieve the diagonal of the matrix
- BSglob2loc(3) - Map global row numbers to local row numbers
- BSglob2proc(3) - Map global row numbers to processor id's
- BSglobal_flops(3) - Returns the global number of flops accumulated by BlockSolve
- BSglobal_nnz(3) - Returns the global number of nonzeros
- BSglobal_num_cliques(3) - Returns the global number of cliques
- BSglobal_num_inodes(3) - Returns the global number of i-nodes
- BSH(1L) - ein Kommando-Interpreter mit Bildschirmeditor und History.
- bsigs(8) - program for debugging burp protocol2 manifest files and indexes
- BSinit(3) - Initializes BlockSolve and MPI. BSinit() calls MPI_Init() if it has not already been called.
- BSinv_diag_block(3) - Invert the dense diagonal blocks of the matrix
- BSloc2glob(3) - Map local row numbers to global row numbers
- BSlocal_flops(3) - Returns the number of flops accumulated by BlockSolve
- BSlocal_nnz(3) - Returns the local number of nonzeros
- BSlocal_num_cliques(3) - Returns the local number of cliques
- BSlocal_num_inodes(3) - Returns the local number of i-nodes
- BSmain_perm(3) - Permute the matrix for efficient parallel execution
- BSmain_reperm(3) - Permute the sparse matrix using data structures generated by BSmain_perm on the same matrix structure
- BSmake_off_map(3) - Generate a mapping from global rows to processor id
- BSmat_subtract(3) - Subtract shift*B from A
- BSMTP(1) - Bareos's SMTP client (mail submission program)
- BSMTRACE(1) - host-based IDS based on OpenBSM
- BSMTRACE.CONF(5) - configuration file for bsmtrace
- BSNMPAGENT(3) - SNMP agent library
- BSNMPCLIENT(3) - SNMP client library
- BSNMPD(1) - simple and extensible SNMP daemon
- BSNMPGET(1) - simple tools for querying SNMP agents
- BSNMPLIB(3) - SNMP decoding and encoding library
- bsnmp-regex.conf(5)
- bsnmp-regex(8) - an SNMP module which produces counters from logs or other text
- bsnmp-ucd(8) - an SNMP module which implements parts of UCD-SNMP-MIB.
- BSnum_colors(3) - Returns the number of colors
- bsod(6) - Blue Screen of Death emulator
- BSoffset(3) - Find a consistent global numbering
- BSON(3) - BSON serialization and deserialization (EOL)
- BSON::Array(3) - BSON type wrapper for a list of elements
- BSON::Binary(3) - Legacy BSON type wrapper for binary data (DEPRECATED)
- BSON::Bool(3) - Legacy BSON type wrapper for Booleans (DEPRECATED)
- BSON::Bytes(3) - BSON type wrapper for binary byte strings
- BSON::Code(3) - BSON type wrapper for Javascript code
- BSON::DBPointer(3) - Legacy BSON type wrapper for DBPointer data (DEPRECATED)
- BSON::DBRef(3) - BSON type wrapper for MongoDB DBRefs
- BSON::Decimal128(3) - BSON type wrapper for Decimal128
- BSON::Doc(3) - BSON type wrapper for ordered documents
- BSON::Double(3) - BSON type wrapper for Double
- BSON::Int32(3) - BSON type wrapper for Int32
- BSON::Int64(3) - BSON type wrapper for Int64
- BSON::MaxKey(3) - BSON type wrapper for MaxKey
- BSON::MinKey(3) - BSON type wrapper for MinKey
- BSON::ObjectId(3) - Legacy BSON type wrapper for Object IDs (DEPRECATED)
- BSON::OID(3) - BSON type wrapper for Object IDs
- BSON::PP(3) - Pure Perl BSON implementation
- BSON::Raw(3) - BSON type wrapper for pre-encoded BSON documents
- BSON::Regex(3) - BSON type wrapper for regular expressions
- BSON::String(3) - BSON type wrapper for strings
- BSON::Symbol(3) - BSON type wrapper for symbol data (DEPRECATED)
- BSON::Time(3) - BSON type wrapper for date and time
- BSON::Timestamp(3) - BSON type wrapper for timestamps
- BSON::Types(3) - Helper functions to wrap BSON type classes
- BSON::XS(3) - XS implementation of MongoDB's BSON serialization (EOL)
- bsp(6) - node builder for WAD files
- BSpar_gmres(3) - Solve a nonsymmetric system of equations using gmres preconditioned by one of several preconditioners. The rhs can be a block of vectors.
- BSpar_isolve(3) - Solve a symmetric indefinite system of equations using symmlq preconditioned by one of several preconditioners.
- BSpar_solve(3) - General solver of a system of equations preconditioned by one of several preconditioners and using one of several possible methods. The rhs can be a block of vectors.
- BSpar_sym_solve(3) - Solve a symmetric positive definite system of equations using conjugate gradients preconditioned by one of several preconditioners. The rhs can be a block of vectors. The user should not call this function directly, but BSpar_solve().
- bsparse(8) - program for regenerating burp protocol2 sparse files
- BSPATCH(1)
- BSprint_log(3) - Print log stuff if MLOG is defined.
- BSPWM(1) - Binary space partitioning window manager
- BSQLDB(1) - batch SQL script processor using DB-Library
- BSQLODBC(FreeTDS) - batch SQL script processor using ODBC
- BSsave_diag(3) - Copy the diagonal of A into special storage in A
- BSscale_diag(3) - Symmetrically scale the matrix by a diagonal matrix
- BSset_diag(3) - Set the diagonal of A to a constant
- BSset_diagv(3) - Set the diagonal equal to a vector
- BSset_mat_icc_storage(3) - Set the matrix storage.
- BSset_mat_symmetric(3) - Set the matrix symmetry.
- BSsetup_block(3) - Change the setup for triangular matrix multiplication to allow for multiple vectors
- BSsetup_factor(3) - Set up the communication for factorization
- BSsetup_forward(3) - Set up the communication structure for triangular matrix solution
- BST(1) - Build and manipulate BuildStream projects...
- BStri_mult(3) - Multiply the matrix (A - shift*B) by a block of vectors
- BStri_solve(3) - Multiply the matrix A(-1) by a block of vectors
- BSTRING(3) - byte string operations
- bsvplay(1)
- BT(4) - Buslogic/Mylex MultiMaster SCSI host adapter driver
- BT_FORMAT_NAMES(1) - formatting BibTeX names for consistent output
- bt_format_names(3) - formatting BibTeX names for consistent output
- BT_INPUT(1) - input/parsing functions in btparse library
- bt_input(3) - input/parsing functions in
- BT_LANGUAGE(1) - the BibTeX data language, as recognized by btparse
- bt_language(3) - the BibTeX data language, as recognized by
- BT_MACROS(1) - accessing and manipulating the btparse macro table
- bt_macros(3) - accessing and manipulating the btparse macro table
- BT_MISC(1) - miscellaneous BibTeX-like string-processing utilities
- bt_misc(3) - miscellaneous BibTeX-like string-processing utilities
- BT_POST_PROCESSING(1) - post-processing of BibTeX strings, values, and entries
- BT_POSTPROCESS(1) - post-processing of BibTeX strings, values, and entries
- bt_postprocess(3) - post-processing of BibTeX strings, values, and entries
- BT_SPLIT_NAMES(1) - splitting up BibTeX names and lists of names
- bt_split_names(3) - splitting up BibTeX names and lists of names
- BT_TRAVERSAL(1) - AST traversal/query functions in btparse library
- bt_traversal(3) - AST traversal/query functions in
- BTAPE(8) - Bareos's Tape interface test program
- BTCFLASH(1L) - Firmware flash utility for BTC DRW1008 DVD+/-RW recorder
- BTCHECK(1) - Bittorrent downloaded data checker
- BTCLI(1) - command line interface to btpd
- BTHIDCONTROL(8) - Bluetooth HID control utility
- BTHIDD(8) - Bluetooth HID daemon
- BTHOST(1) - look up Bluetooth host names and Protocol Service Multiplexor values
- BTINFO(1) - BitTorrent Protocol Daemon information
- BTOA(1) - encode/decode binary to printable ASCII
- BTOOL_FAQ(1) - Frequently-Asked Questions about btparse and Text::BibTeX
- BTOWC(3) - convert between wide and single-byte characters
- BTPAND(8) - Bluetooth PAN daemon
- BTPARSE(1) - C library for parsing and processing BibTeX data files
- btparse(3) - C library for parsing and processing BibTeX data files
- BTPD(1) - BitTorrent Protocol Daemon
- BTRACEBACK(8) - wrapper script around gdb and bsmtp
- BTREE(3) - btree database access method
- BTREE-DUMP(1) - unformatted dump of a B-Tree DB file
- BTSIXAD(8) - Driver for Sixaxis gamepad connected over Bluetooth
- BTSOCKSTAT(1) - show Bluetooth sockets information
- BTXLD(8) - link editor for BTX clients
- bu_check_files(1) - Verify the file integrity of backupuser(1) backups
- bubble3d(6) - 3d rising bubbles.
- BUCARDO(1) - utility script for controlling the Bucardo program
- Bucardo(3) - Postgres multi-master replication system
- BUCKETIZE(1) - Move files into buckets
- Bucketizer(3) - Distribute sized items to buckets with limited size
- BUDDY-NG(1) - a tool to work with easside-ng
- BUDGETS(1)
- BUDGETS_ALERT-RULE(1)
- BUDGETS_ALERT-RULE_CREATE(1)
- BUDGETS_ALERT-RULE_DELETE(1)
- BUDGETS_ALERT-RULE_GET(1)
- BUDGETS_ALERT-RULE_LIST(1)
- BUDGETS_ALERT-RULE_UPDATE(1)
- BUDGETS_BUDGET(1)
- BUDGETS_BUDGET_CREATE(1)
- BUDGETS_BUDGET_DELETE(1)
- BUDGETS_BUDGET_GET(1)
- BUDGETS_BUDGET_LIST(1)
- BUDGETS_BUDGET_UPDATE(1)
- BUF(9) - kernel buffer I/O scheme used in FreeBSD VM system
- BUF_ISLOCKED(9) - returns the state of the lock linked to the buffer
- BUF_LOCK(9) - locks a buffer
- BUF_LOCKFREE(9) - destroys a buffer's lock
- BUF_LOCKINIT(9) - initializes a buffer lock
- BUF_MEM_NEW(3) - simple character array structure
- BUF_MEM_NEW(3ossl) - simple character array structure
- BUF_RECURSED(9) - checks if the lock linked to the buffer is recursed
- BUF_REFCNT(9)
- BUF_RING(9) - multi-producer, {single, multi}-consumer lock-less ring buffer
- BUF_TIMELOCK(9) - locks a buffer
- BUF_UNLOCK(9) - unlocks a locked buffer
- BUFFCHAN(8) - Buffered file-writing backend for INN
- BUFFER(1) - very fast reblocking program
- buffer_close(3) - close buffer
- buffer_feed(3) - low-level component of buffer_get
- buffer_flush(3) - feed buffer to write function
- buffer_fromarray(3) - initialize buffer structure from array
- buffer_frombuf(3) - initialize buffer structure from raw memory
- buffer_fromsa(3) - initialize buffer structure from stralloc
- buffer_get(3) - read binary data from buffer
- buffer_get_new_token_sa(3) - read token from buffer
- buffer_get_new_token_sa_pred(3) - read token from buffer
- buffer_get_token(3) - read token from buffer
- buffer_get_token_pred(3) - read token from buffer
- buffer_get_token_sa(3) - read token from buffer
- buffer_get_token_sa_pred(3) - read token from buffer
- buffer_getc(3) - read one char from buffer
- buffer_getline(3) - read line from buffer
- buffer_getline_sa(3) - read line from buffer
- buffer_getn(3) - read binary data from buffer
- buffer_getnewline_sa(3) - read line from buffer
- buffer_init(3) - initialize buffer structure
- buffer_init_free(3) - initialize buffer structure
- buffer_mmapread(3) - create read-only memory-mapped file buffer
- buffer_peek(3) - return pointer to string in buffer
- buffer_put(3) - write binary data to buffer
- buffer_put8long(3) - write an octal ASCII representation of an unsigned long integer to buffer
- buffer_putalign(3) - write binary data to buffer
- buffer_puterror(3) - write error string to buffer and flush
- buffer_puterror2(3) - write error string to buffer and flush
- buffer_putflush(3) - write binary data to buffer and flush
- buffer_putlong(3) - write a decimal ASCII representation of a signed long integer to buffer
- buffer_putlonglong(3) - write a decimal ASCII representation of a signed long integer to buffer
- buffer_putm(3) - write ASCIIZ string(s) to buffer
- buffer_putnlflush(3) - write '\n' to buffer and flush
- buffer_puts(3) - write ASCIIZ string to buffer
- buffer_putsa(3) - write stralloc to buffer
- buffer_putsaflush(3) - write stralloc to buffer and flush
- buffer_putsalign(3) - write ASCIIZ string to buffer
- buffer_putsflush(3) - write ASCIIZ string to buffer and flush
- buffer_putspace(3) - write ASCII space to buffer
- buffer_putulong(3) - write a decimal ASCII representation of an unsigned long integer to buffer
- buffer_putulonglong(3) - write a decimal ASCII representation of a signed long integer to buffer
- buffer_putxlong(3) - write a hexidecimal ASCII representation of an unsigned long integer to buffer
- buffer_seek(3) - remove bytes from beginning of string in buffer
- buffer_tosa(3) - initialize buffer for writing to stralloc
- BufferText(3) - Filter to put all characters() in one event
- BUFFINDEXED.CONF(5) - Configuration for the buffindexed overview method
- BUFINFO(3PVM) - Returns information about a message buffer.
- BUFR_REENCODE(1)
- bufr_reencode(3)
- BUFRALTER(1)
- bufralter(3)
- BUFRENCODE(1)
- bufrencode(3)
- BUFREXTRACT(1)
- bufrextract(3)
- BUFRREAD(1)
- bufrread(3)
- BUFRRESOLVE(1)
- bufrresolve(3)
- BUGPOINT(1) - automatic test case reduction tool
- BUGS(1) - How to diagnose and report PDL problems
- BUGSX(1) - display and evolve biomorphs
- bugz(1)
- BUGZILLA(1) - command line tool for interacting with Bugzilla
- buici-clock(1) - attractive X11 clock
- BUILD.COMMON.MK(5) - bsdbuild - common defines
- BUILD(7) - General instructions on how to build the system
- build::Keysyms(3) - key codes for Gtk2 programs
- build_3dbox(3)
- build_3dplane(3)
- build_cylinder(3)
- build_pointcloud(3)
- BUILD_REGION(nged) - Builds a region from existing solids that have specifically formatted names based on the provided tags and numbers.
- build_sphere(3)
- BUILD-ASTROMETRY-INDEX(1) - Create astrometry.net index files
- BUILDBOT-WORKER(1) - a tool for managing buildbot worker instances
- BUILDDBM(8) - build a DBM version of Radius users database
- BUILDFLAGS.AWK(1)
- BUILDINFO(5) - Makepkg package build information file
- BUILDIT(8) - time a command, log its output and mail notification when finished
- BUILDMAP(3) - create a color map array from an RLE file header.
- BUILDPROGRAM(1) - compile, link with Gnuastro library and its dependencies, and run a C program
- BuildSAXBase(3) - Base class SAX Drivers and Filters
- BUILTIN(1) - shell built-in commands
- Builtin_attributes(3) - no description
- BUKU(1) - Bookmark manager like a text-based mini-web
- BULK(8) - Daemon for submitting messages to SMTP engine
- BULK_EXTRACTOR(1) - Scans a disk image for regular expressions and other content.
- BULK_MAILER(1) - assist in delivery of mail to large numbers of recipients
- Bulkmail(3) - Platform independent mailing list module
- Bulkmail::DummyServer(3) - dummy class for dummy server objects
- Bulkmail::Dynamic(3) - platform independent mailing list module for mail merges and dynamically built messages
- Bulkmail::Object(3) - used to create subclasses for Mail::Bulkmail.
- Bulkmail::Server(3) - handles server connections and communication for Mail::Bulkmail
- BUMP(1) - send signal to tags run by ltp-pan
- bumps(6) - move distorting spotlight around desktop
- BUNDLE(1) - Ruby Dependency Management
- Bundle::Apache::ASP(3) - Install Apache::ASP and required
- Bundle::Apache::ASP::Extra(3) - Install modules that provide additional functionality to Apache::ASP
- Bundle::Apache2(3) - Install Apache mod_perl2 and related modules
- Bundle::ApacheTest(3) - A bundle to install all Apache-Test related modules
- Bundle::CGI::Builder::Complete(3) - A bundle to install the complete CGI::Builder framework.
- Bundle::DBD::CSV(3) - A bundle to install the DBD::CSV driver
- Bundle::DBD::mysql(3)
- Bundle::DBD::Pg(3) - A bundle to install all DBD::Pg related modules
- Bundle::DBI(3) - A bundle to install DBI and required modules.
- Bundle::HTTP::WebTest(3) - a bundle to install HTTP::WebTest
- Bundle::Image::Info::Everything(3) - complete support for Image::Info
- Bundle::Image::Info::PNG(3) - full PNG support for Image::Info
- Bundle::Image::Info::SVG(3) - SVG support for Image::Info
- Bundle::Image::Info::XBM(3) - XBM (X11 bitmap) support for Image::Info
- Bundle::Image::Info::XPM(3) - XPM (X11 pixmap) support for Image::Info
- Bundle::Net::LDAP(3) - A bundle for Net::LDAP
- Bundle::Object::InsideOut(3) - A bundle of modules for full Object::InsideOut support
- Bundle::ParallelUA(3) - CPAN Bundle for the LWP Parallel User Agent extension
- Bundle::Perl6(3) - A bundle to install Perl6-related modules
- Bundle::PerlPoint(3) - A bundle to install PerlPoint related modules
- Bundle::PlRPC(3) - A bundle to install PlRPC-Server, Client and prerequisites.
- Bundle::SNMP::MIB::Compiler(3) - A bundle to install all SNMP::MIB::Compiler related modules
- Bundle::Template::Magic(3) - A bundle to install MagicTemplate distribution plus all related extensions and prerequisites.
- Bundle::Text::Query::BuildSQL(3) - A bundle to install related modules
- BUNDLE_GO(3) - launches a coroutine within a bundle
- BUNDLE_GO_MEM(3) - launches a coroutine within a bundle
- BUNDLE_MEM(3) - create an empty coroutine bundle
- BUNDLE_WAIT(3) - wait while coroutines in the bundle finish
- BUNDLE-ADD(1) - Add gem to the Gemfile and run bundle install
- BUNDLE-BINSTUBS(1) - Install the binstubs of the listed gems
- BUNDLE-CACHE(1) - Package your needed
- BUNDLE-CHECK(1) - Verifies if dependencies are satisfied by installed gems
- BUNDLE-CLEAN(1) - Cleans up unused gems in your bundler directory
- BUNDLE-CONFIG(1) - Set bundler configuration options
- BUNDLE-DOCTOR(1) - Checks the bundle for common problems
- BUNDLE-EXEC(1) - Execute a command in the context of the bundle
- BUNDLE-GEM(1) - Generate a project skeleton for creating a rubygem
- BUNDLE-INFO(1) - Show information for the given gem in your bundle
- BUNDLE-INIT(1) - Generates a Gemfile into the current working directory
- BUNDLE-INJECT(1) - Add named gem(s) with version requirements to Gemfile
- BUNDLE-INSTALL(1) - Install the dependencies specified in your Gemfile
- BUNDLE-LIST(1) - List all the gems in the bundle
- BUNDLE-LOCK(1) - Creates / Updates a lockfile without installing
- BUNDLE-OPEN(1) - Opens the source directory for a gem in your bundle
- BUNDLE-OUTDATED(1) - List installed gems with newer versions available
- BUNDLE-PACKAGE(1) - Package your needed
- BUNDLE-PLATFORM(1) - Displays platform compatibility information
- BUNDLE-PRISTINE(1) - Restores installed gems to their pristine condition
- BUNDLE-REMOVE(1) - Removes gems from the Gemfile
- BUNDLE-SHOW(1) - Shows all the gems in your bundle, or the path to a gem
- BUNDLE-UPDATE(1) - Update your gems to the latest available versions
- BUNDLE-VIZ(1) - Generates a visual dependency graph for your Gemfile
- bup(1) - Backup program using rolling checksums and git file formats
- bup-bloom(1) - generates, regenerates, updates bloom filters
- bup-cat-file(1) - extract archive content (low-level)
- bup-daemon(1) - listens for connections and runs bup server
- bup-damage(1) - randomly destroy blocks of a file
- bup-drecurse(1) - recursively list files in your filesystem
- bup-features(1) - report the current status and capabilities of bup itself
- bup-fsck(1) - verify or repair a bup repository
- bup-ftp(1) - ftp-like client for navigating bup repositories
- bup-fuse(1) - mount a bup repository as a filesystem
- bup-gc(1) - remove unreferenced, unneeded data
- bup-get(1) - copy repository items (CAUTION: EXPERIMENTAL)
- bup-help(1) - open the documentation for a given bup command
- bup-import-duplicity(1) - import duplicity backups
- bup-import-rdiff-backup(1) - import a rdiff-backup archive
- bup-import-rsnapshot(1) - import a rsnapshot archive
- bup-index(1) - print and/or update the bup filesystem index
- bup-init(1) - initialize a bup repository
- bup-join(1) - concatenate files from a bup repository
- bup-ls(1) - list the contents of a bup repository
- bup-margin(1) - figure out your deduplication safety margin
- bup-memtest(1) - test bup memory usage statistics
- bup-meta(1) - create or extract a metadata archive
- bup-midx(1) - create a multi-index (.midx) file from several .idx files
- bup-mux(1) - multiplexes data and error streams over a connection
- bup-on(1) - run a bup server locally and client remotely
- bup-prune-older(1) - remove older saves
- bup-random(1) - generate a stream of random output
- bup-restore(1) - extract files from a backup set
- bup-rm(1) - remove references to archive content
- bup-save(1) - create a new bup backup set
- bup-server(1) - the server side of the bup client-server relationship
- bup-split(1) - save individual files to bup backup sets
- bup-tag(1) - tag a commit in the bup repository
- bup-tick(1) - wait for up to one second
- BURGERSPACE(6) - UDP server for the networked version of BurgerSpace
- BURNCD(8)
- Burp(8) - BackUp and Restore Program
- burp_ca(8) - program for generating certificates for use with burp
- BURST(1) - explode digests into nmh messages
- burst_buffer.conf(5) - Slurm configuration file for burst buffer management.
- BUS_ACTIVATE_RESOURCE(9) - activate or deactivate a resource
- BUS_ADD_CHILD(9) - add a device node to the tree with a given priority
- BUS_ADJUST_RESOURCE(9) - adjust resource allocated from a parent bus
- BUS_ALLOC_RESOURCE(9) - allocate resources from a parent bus
- BUS_BIND_INTR(9) - bind an interrupt resource to a specific CPU
- BUS_CHILD_DELETED(9) - notify a bus device that a child is being deleted
- BUS_CHILD_DETACHED(9) - notify a bus device that a child was detached
- BUS_CHILD_PRESENT(9) - ask the bus driver to see if this device is still really present
- BUS_CONFIG_INTR(9) - configure interrupt polarity and trigger mode
- BUS_DELAYED_ATTACH_CHILDREN(9) - request that the children be attached when interrupts are enabled
- BUS_DESCRIBE_INTR(9) - associate a description with an active interrupt handler
- BUS_DMA(9) - Bus and Machine Independent DMA Mapping Interface
- BUS_GENERIC_ATTACH(9)
- BUS_GENERIC_DETACH(9)
- BUS_GENERIC_NEW_PASS(9) - generic implementation of BUS_NEW_PASS for bus devices
- BUS_GENERIC_PRINT_CHILD(9)
- BUS_GENERIC_READ_IVAR(9)
- BUS_GENERIC_SHUTDOWN(9)
- BUS_GET_CPUS(9) - request a set of device-specific CPUs
- BUS_GET_RESOURCE(9) - read a resource range/value with a given resource ID
- BUS_MAP_RESOURCE(9) - map or unmap an active resource
- BUS_NEW_PASS(9) - notify a bus that the pass level has been changed
- BUS_PRINT_CHILD(9) - print information about a device
- BUS_READ_IVAR(9) - manipulate bus-specific device instance variables
- BUS_RELEASE_RESOURCE(9) - release resources on a bus
- BUS_RESCAN(9) - rescan a bus checking for devices that have been added or removed
- BUS_SET_PASS(9) - raise the bus pass level
- BUS_SET_RESOURCE(9) - associate a definite resource with a given resource ID
- BUS_SETUP_INTR(9) - create, attach and teardown an interrupt handler
- BUS_SPACE(9) - bus space manipulation functions
- Business(3) - fast calendar and business date calculations
- Business::EDI(3) - Top level class for generating U.N. EDI interchange objects and subobjects.
- Business::EDI::CodeList(3)
- Business::EDI::Composite(3)
- Business::EDI::Spec(3) - Object class for CSV-based U.N. EDI specifications
- Business::Hours(3) - Calculate business hours in a time period
- Business::IS::PIN(3) - Validate and process Icelandic PIN numbers (Icelandic: kennitölur)
- Business::ISBN(3) - work with International Standard Book Numbers
- Business::ISBN::Data(3) - data pack for Business::ISBN
- Business::ISBN10(3) - work with 10 digit International Standard Book Numbers
- Business::ISBN13(3) - work with 13 digit International Standard Book Numbers
- Business::ISMN(3) - work with International Standard Music Numbers
- Business::ISMN::Data(3) - data pack for Business::ISMN
- Business::ISSN(3) - Perl extension for International Standard Serial Numbers
- Business::MaxMind(3) - API for MaxMind minFraud Services
- Business::MaxMind::CreditCardFraudDetection(3) - Access MaxMind minFraud services
- Business::MaxMind::HTTPBase(3) - Base class for accessing HTTP web services
- Business::MaxMind::TelephoneVerification(3) - Access MaxMind's Telephone Verification services
- Business::OnlinePayment::PaymenTech(3) - Chase Paymentech backend for Business::OnlinePayment
- Business::PayPal(3) - Perl extension for automating PayPal transactions
- Business::PayPal::EWP(3) - Perl extension for PayPal's Encrypted Website Payments
- Business::TW::Invoice::U420(3) - Print Taiwan Unified Invoice with U420 printer
- Business::TW::TSIB::CStorePayment(3) - Module for Taishin Bank Convenient Store Payment Management
- Business::TW::TSIB::VirtualAccount(3) - Module for Taishin Bank Virtual Account Management
- Business::UPS(3) - A UPS Interface Module
- busy(n) - Make Tk widgets busy, temporarily blocking user interactions.
- BUSYBOX(1) - The Swiss Army Knife of Embedded Linux
- button(n) - Create and manipulate button widgets
- BV(1)
- BV_BACKUP(1)
- BV_BACKUP_CHANGE-COMPARTMENT(1)
- BV_BACKUP_COPY(1)
- BV_BACKUP_CREATE(1)
- BV_BACKUP_DELETE(1)
- BV_BACKUP_GET(1)
- BV_BACKUP_LIST(1)
- BV_BACKUP_UPDATE(1)
- BV_BLOCK-VOLUME-REPLICA(1)
- BV_BLOCK-VOLUME-REPLICA_GET(1)
- BV_BLOCK-VOLUME-REPLICA_LIST(1)
- BV_BOOT-VOLUME(1)
- BV_BOOT-VOLUME_CHANGE-COMPARTMENT(1)
- BV_BOOT-VOLUME_CREATE(1)
- BV_BOOT-VOLUME_CREATE-BOOT-VOLUME-BOOT-VOLUME-SOURCE-FROM-BOOT-VOLUME-REPLICA-DETAILS(1)
- BV_BOOT-VOLUME_DELETE(1)
- BV_BOOT-VOLUME_GET(1)
- BV_BOOT-VOLUME_LIST(1)
- BV_BOOT-VOLUME_UPDATE(1)
- BV_BOOT-VOLUME-BACKUP(1)
- BV_BOOT-VOLUME-BACKUP_CHANGE-COMPARTMENT(1)
- BV_BOOT-VOLUME-BACKUP_COPY(1)
- BV_BOOT-VOLUME-BACKUP_CREATE(1)
- BV_BOOT-VOLUME-BACKUP_DELETE(1)
- BV_BOOT-VOLUME-BACKUP_GET(1)
- BV_BOOT-VOLUME-BACKUP_LIST(1)
- BV_BOOT-VOLUME-BACKUP_UPDATE(1)
- BV_BOOT-VOLUME-KMS-KEY(1)
- BV_BOOT-VOLUME-KMS-KEY_DELETE(1)
- BV_BOOT-VOLUME-KMS-KEY_GET(1)
- BV_BOOT-VOLUME-KMS-KEY_UPDATE(1)
- BV_BOOT-VOLUME-REPLICA(1)
- BV_BOOT-VOLUME-REPLICA_GET(1)
- BV_BOOT-VOLUME-REPLICA_LIST(1)
- BV_VOLUME(1)
- BV_VOLUME_CHANGE-COMPARTMENT(1)
- BV_VOLUME_CREATE(1)
- BV_VOLUME_CREATE-VOLUME-VOLUME-SOURCE-FROM-BLOCK-VOLUME-REPLICA-DETAILS(1)
- BV_VOLUME_DELETE(1)
- BV_VOLUME_GET(1)
- BV_VOLUME_LIST(1)
- BV_VOLUME_UPDATE(1)
- BV_VOLUME-BACKUP-POLICY(1)
- BV_VOLUME-BACKUP-POLICY_CREATE(1)
- BV_VOLUME-BACKUP-POLICY_DELETE(1)
- BV_VOLUME-BACKUP-POLICY_GET(1)
- BV_VOLUME-BACKUP-POLICY_LIST(1)
- BV_VOLUME-BACKUP-POLICY_UPDATE(1)
- BV_VOLUME-BACKUP-POLICY-ASSIGNMENT(1)
- BV_VOLUME-BACKUP-POLICY-ASSIGNMENT_CREATE(1)
- BV_VOLUME-BACKUP-POLICY-ASSIGNMENT_DELETE(1)
- BV_VOLUME-BACKUP-POLICY-ASSIGNMENT_GET(1)
- BV_VOLUME-BACKUP-POLICY-ASSIGNMENT_GET-VOLUME-BACKUP-POLICY-ASSET-ASSIGNMENT(1)
- BV_VOLUME-GROUP(1)
- BV_VOLUME-GROUP_CHANGE-COMPARTMENT(1)
- BV_VOLUME-GROUP_CREATE(1)
- BV_VOLUME-GROUP_DELETE(1)
- BV_VOLUME-GROUP_GET(1)
- BV_VOLUME-GROUP_LIST(1)
- BV_VOLUME-GROUP_UPDATE(1)
- BV_VOLUME-GROUP-BACKUP(1)
- BV_VOLUME-GROUP-BACKUP_CHANGE-COMPARTMENT(1)
- BV_VOLUME-GROUP-BACKUP_COPY(1)
- BV_VOLUME-GROUP-BACKUP_CREATE(1)
- BV_VOLUME-GROUP-BACKUP_DELETE(1)
- BV_VOLUME-GROUP-BACKUP_GET(1)
- BV_VOLUME-GROUP-BACKUP_LIST(1)
- BV_VOLUME-GROUP-BACKUP_UPDATE(1)
- BV_VOLUME-GROUP-REPLICA(1)
- BV_VOLUME-GROUP-REPLICA_GET(1)
- BV_VOLUME-GROUP-REPLICA_LIST(1)
- BV_VOLUME-KMS-KEY(1)
- BV_VOLUME-KMS-KEY_DELETE(1)
- BV_VOLUME-KMS-KEY_GET(1)
- BV_VOLUME-KMS-KEY_UPDATE(1)
- BVI(1) - visual editor for binary files
- BVM(8) - Bhyve Virtual machines Management tool
- BW(5) - Black and White image file format and utilities
- BW_FILE_RD(8) - time the reading and summing of a file
- BW_MEM(8) - time memory bandwidth
- BW_MEM_RD(8) - time memory read rate (with overhead)
- BW_MMAP_RD(8) - time the reading and summing of a file
- BW_PIPE(8) - time data movement through pipes
- BW_TCP(1) - time data movement through TCP/IP sockets
- BW_UNIX(8) - UNIX pipe bandwidth
- bwa(1) - Burrows-Wheeler Alignment Tool
- BWCROP(1) - crop black and white bw files
- BWDIFF(1) - compare two black and white files
- BW-FB(1) - display a black and white bw image on a framebuffer
- BWFILTER(1) - apply a 3x3 filter to a black and white bw file
- BWHIST(1) - display a histogram of a black and white bw file on a framebuffer
- BWHISTEQ(1) - equalize the histogram of a black and white bw file
- BWI(4) - Broadcom BCM43xx IEEE 802.11b/g wireless network driver
- BWILD(1) - Bareos's 'wildcard' engine
- BWILD(8) - Bacula's 'wildcard' engine
- bwm-ng(1) - Bandwidth Monitor NG (Next Generation), a live bandwidth monitor for network and disk io.
- BWMOD(1) - arithmetically modify pixel values in black and white bw file
- BWN(4) - Broadcom BCM43xx SoftMAC IEEE 802.11 wireless network driver
- bwping(8)
- BW-PIX(1) - convert a black and white image to color format
- BW-PNG(1) - convert a BRL BW(5) format image to a PNG (Portable Network Graphics) format image
- BW-PS(1) - convert a black and white bw file to PostScript
- BWRECT(1) - extract a rectangle from a black and white bw file
- BWROT(1) - rotate, invert, or reverse a black and white bw file
- BWSCALE(1) - change the size of a black and white bw file
- BWSHRINK(1) - shrink a black and white bw file
- BWSTAT(1) - list statistics related to a black and white bw image.
- BWTHRESH(1) - threshold a black-and-white bw file
- BXE(4) - QLogic NetXtreme II Ethernet 10Gb PCIe adapter driver
- bximage(1) - Interactive Disk Image Creation, Conversion, Resize and Redolog Commit Tool for Bochs
- byobu(1) - wrapper script for seeding a user's byobu configuration and launching a text based window manager (either screen or tmux)
- byobu-config(1) - Configuration utility for byobu
- byobu-ctrl-a(1) - Configure Byobu's ctrl-a behavior
- byobu-enable(1) - wrapper script for enabling/disabling automatic startup of byobu after login into text console
- byobu-export(1) - DEPRECATED
- byobu-janitor(1) - script for cleaning and upgrading environment after upgrades
- byobu-keybindings(1) - toggle on/off Byobu's keybindings
- byobu-launcher(1) - Byobu Launcher
- byobu-launcher-install(1) - Byobu Launcher installation utility
- byobu-launcher-uninstall(1) - Byobu Launcher uninstallation utility
- byobu-layout(1) - Save and restore byobu-tmux layouts
- byobu-prompt(1) - add and remove a nice color prompt to your shell configuration
- byobu-quiet(1) - Silence all of Byobu's status indicators and eliminate the hardstatus line
- byobu-reconnect-sockets(1) - Sourcable script that updates GPG_AGENT_INFO and DBUS_SESSION_BUS_ADDRESS in the environment
- byobu-screen(1) - Launch byobu with screen as the backend
- byobu-select-backend(1) - select your default Byobu backend window manager
- byobu-select-profile(1) - select your Byobu foreground and background colors
- byobu-select-session(1) - select and connect to a byobu session
- byobu-shell(1) - Print the message of the day and launch a shell
- byobu-silent(1)
- byobu-status(1) - displays status suitable for printing by the BYOBU_BACKEND
- byobu-status-detail(1) - Wrapper that uses a sensible pager
- byobu-tmux(1) - Launch byobu with tmux as the backend
- byobu-ugraph(1) - helper script for notification history graphs
- byobu-ulevel(1) - helper script for notification level indicators
- byte_chr(3) - search for a byte in a string
- byte_copy(3) - copy a string
- byte_copyr(3) - copy a string
- byte_diff(3) - compare two strings
- byte_equal(3) - compare two strings
- byte_rchr(3) - search for a byte in a string
- byte_zero(3) - initialize a string
- BYTE2UNI(1) - shows what some encoding's byte should be in Unicode
- ByteLoader(3) - load byte compiled perl code
- BYTEORDER(9) - byte order operations
- Bytes::Random::Secure(3) - Perl extension to generate cryptographically-secure random bytes.
- Bytes::Random::Secure::Tiny(3) - A tiny Perl extension to generate cryptographically-secure random bytes.
- BYTESHUF(1) - Shuffle or unshuffle bytes in a file
- BytesLabels(3) - Byte sequence operations.
- BYTGPIO(4) - Intel Bay Trail SoC GPIO controller
- BZ::Client(3) - A client for the Bugzilla web services API.
- BZ::Client::API(3) - Abstract base class for the clients of the Bugzilla API.
- BZ::Client::Bug(3) - Client side representation of a bug in Bugzilla
- BZ::Client::Bugzilla(3) - Provides information about the Bugzilla server.
- BZ::Client::Exception(3) - Exception class, which is thrown by BZ::Client in case of errors.
- BZ::Client::Product(3) - Client side representation of a product in Bugzilla
- BZ::Client::Test(3) - Module for writing integration tests
- BZ::Client::XMLRPC(3) - Performs XML-RPC calls on behalf of the client.
- bz2(n) - Data compression "bz2"
- BZADMIN(6) - a text based client for BZFlag
- BZDIFF(1) - compare bzip2 compressed files
- BZERO(3) - write zeroes to a byte string
- BZFLAG(6) - a tank battle game
- BZFS(6) - BZFlag game server
- BZGREP(1) - search possibly bzip2 compressed files for a regular expression
- BZIP(1) - a block-sorting file compressor, v0.21
- BZMORE(1) - file perusal filter for crt viewing of bzip2 compressed text
- BZW(5) - BZFlag world file format
- BZZ(1) - DjVu general purpose compression utility.