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.TH "SEGMENTFST" "1" "" "segmentFst (vcflib)" "segmentFst (VCF statistics)"
.hy
.SH NAME
.PP
\f[B]segmentFst\f[R]
.SH SYNOPSIS
.PP
\f[B]segmentFst\f[R] -s 0.7 -f wcFst.output.txt
.SH DESCRIPTION
.PP
\f[B]segmentFst\f[R] creates genomic segments (bed file) for regions
with high wcFst
.SH OPTIONS
.IP
.nf
\f[C]

**segmentFst** provides a way to find continious regions with high Fst values.  It takes the output of wcFst and produces a BED file.  These high Fst region can be permutated with \[aq]permuteGPATwindow\[aq]
Output : 8 columns :                 
     1. Seqid                        
     2. Start (zero based)           
     3. End   (zero based)           
     4. Average Fst                  
     5. Average high Fst (Fst > -s)  
     6. N Fst values in segment      
     7. N high fst values in segment 
     8. Segment length               
required: -f            -- Output from wcFst     
optional: -s            -- High Fst cutoff [0.8] 

Type: statistics


\f[R]
.fi
.SH EXIT VALUES
.TP
\f[B]0\f[R]
Success
.TP
\f[B]not 0\f[R]
Failure
.SH SEE ALSO
.PP
\f[B]vcflib\f[R](1)
.SH OTHER
.SH LICENSE
.PP
Copyright 2011-2023 (C) Erik Garrison and vcflib contributors.
MIT licensed.
.SH AUTHORS
Erik Garrison and vcflib contributors.