Man page - segmentfst(1)
Packages contains this manual
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Package: libvcflib-tools
apt-get install libvcflib-tools
apt-get install libvcflib-tools
Manuals in package:
Documentations in package:
Manual
SEGMENTFST
NAMESYNOPSIS
DESCRIPTION
OPTIONS
EXIT VALUES
SEE ALSO
OTHER
LICENSE
AUTHORS
NAME
segmentFst
SYNOPSIS
segmentFst -s 0.7 -f wcFst.output.txt
DESCRIPTION
segmentFst creates genomic segments (bed file) for regions with high wcFst
OPTIONS
**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
EXIT VALUES
|
0 |
Success |
|||
|
not 0 |
Failure |
SEE ALSO
vcflib (1)
OTHER
LICENSE
Copyright 2011-2024 (C) Erik Garrison and vcflib contributors. MIT licensed. Copyright 2020-2024 (C) Pjotr Prins.
AUTHORS
Erik Garrison and vcflib contributors.