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MINCPIK(1) User Contributed Perl Documentation MINCPIK(1)
 

mincpik - generate images from minc files

mincpik [options] <infile>.mnc [<image.type>]
mincpik generates image files from MINC volumes using the Imagemagick convert utility. Use -help or -man for more information and examples

mincpik generates image files from MINC volumes using the Imagemagick convert utility. For a complete list of output file types see the convert man pages.
EXAMPLES: To display a default view, axial (z) slicing, middle slice using display. (display is part of the Imagemagick package)
   mincpik infile.mnc PNG:- | display -
To generate a PNG file of the 15th coronal slice
   mincpik -slice 15 -coronal infile.mnc outfile.png
To generate a JPG file using the hotmetal lookup table with the image range 0 to 100
   mincpik -lookup '-hotmetal' -image_range 0 100 infile.mnc outfile.jpg
ImageMagick: http://www.wizards.dupont.com/cristy/ImageMagick.html
NB: ImageMagick should be compiled without 16-bit quanta.
Currently if there is a time dimension in the file the image will only produced from the first time point
Problems or comments should be sent to: a.janke\@gmail.com

-v, --verbose
Be noisy when doing things
--version
Print version number and exit
-?, --help
Dump some quick help output
--man
Dump a man page
-c --clobber
overwrite the output file if it exists already
-f --fake
do a dry run, (echo cmds only). This is usually used in combination with -verbose to echo commands only
--scale
scaling factor for resulting image, by default images are output at twice their original resolution
--width
autoscale the resulting image to have a fixed image width (in pixels)
--depth
bitdepth for resulting image 8 or 16 (MSB machines only!)
--title
add a title to the resulting image, if just this option is specified the text used for the title is the name of the input image file.
--title_text
use the input string for the title [default: input-filename]. This option must be used in conjunction with -title
--title_size
font point size for the title
--anot_bar
create an annotated bar to match the image (use height of the output image)
Image range and lookup table options
--range
valid range of values for MINC file
--image_range
range of image values to use for pixel intensity
--auto_range
automatically determine image range using a 5 and 95% PcT. (histogram)
--lookup
arguments to pass to minclookup
Slicing options
-s --slice
slice number to get. (note this is in voxel co-ordinates)
-z --axial --transverse
get an axial/transverse (z) slice
-y --coronal
get a coronal (y) slice
-x --sagittal
get a sagital (x) slice
Triplanar options
-t --triplanar
create a triplanar view of the input file
--tilesize
pixel size for each image in a triplanar
--sagittal_offset
offset the sagittal slice from the centre
--sagittal_offset_perc
offset the sagittal slice by a percentage from the centre
--vertical
create a vertical triplanar view (Default)
--horizontal
create a horizontal triplanar view

convert(1) mincextract(1) display(1)

Andrew Janke - a.janke@gmail.com

Copyright 2012 by Andrew L Janke
2019-01-02 perl v5.28.1

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