DOKK / manpages / debian 12 / libvcflib-tools / segmentFst.1.en
SEGMENTFST(1) segmentFst (VCF statistics) SEGMENTFST(1)

segmentFst

segmentFst -s 0.7 -f wcFst.output.txt

segmentFst creates genomic segments (bed file) for regions with high wcFst

**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 'permuteGPATwindow'
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

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vcflib(1)

Copyright 2011-2022 (C) Erik Garrison and vcflib contributors. MIT licensed.

Erik Garrison and vcflib contributors.

segmentFst (vcflib)