segmentIhs.md

% SEGMENTIHS(1) segmentIhs (vcflib) | segmentIhs (VCF statistics) % Erik Garrison and vcflib contributors

NAME

segmentIhs

SYNOPSIS

segmentFst -s 2 -f iHS.normalized.output.txt

DESCRIPTION

Creates genomic segments (bed file) for regions with high wcFst

OPTIONS

Output : 8 columns :                 
     1. Seqid                        
     2. Start (zero based)           
     3. End   (zero based)           
     4. Average iHS                  
     5. Average high Fst (iHS > -s)  
     6. N iHS values in segment      
     7. N high iHS values in segment 
     8. Segment length               
required: -f            -- Output from normalizeIHS     
optional: -s            -- High absolute iHS cutoff [2] 

Type: statistics

EXIT VALUES

0 : Success

not 0 : Failure

SEE ALSO

vcflib(1)

OTHER

Source code

segmentIhs.cpp

LICENSE

Copyright 2011-2023 (C) Erik Garrison and vcflib contributors. MIT licensed.