NAME

SYNOPSIS

DESCRIPTION

OPTIONS

The statistic Vst is used to test the difference in copy numbers at
each SV between two groups: Vst = (Vt-Vs)/Vt, where Vt is the overall
variance of copy number and Vs the average variance within
populations.
Output : 4 columns :     
     1. seqid            
     2. position         
     3. end              
     3. vst              
     4. probability      
required: t,target     -- argument: a zero based comma separated list of target individuals corresponding to VCF columns       
required: b,background -- argument: a zero based comma separated list of background individuals corresponding to VCF columns   
required: f,file       -- argument: a properly formatted VCF.                                                                  
required: y,type       -- argument: the genotype field with the copy number: e.g. CN|CNF                           
optional: r,region     -- argument: a tabix compliant genomic range : seqid or seqid:start-end                                 
optional: x,cpu        -- argument: number of CPUs [1] 
optional: n,per        -- argument: number of permutations [1000] 
Type: statistics

    

EXIT VALUES

0

Success

not 0

Failure

SEE ALSO

OTHER

LICENSE

AUTHORS