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% SEGMENTFST(1) segmentFst (vcflib) | segmentFst (VCF statistics)
% Erik Garrison and vcflib contributors
# 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](./vcflib.md)(1)
# OTHER
## Source code
[segmentFst.cpp](https://github.com/vcflib/vcflib/blob/master/src/segmentFst.cpp)
# LICENSE
Copyright 2011-2024 (C) Erik Garrison and vcflib contributors. MIT licensed.
Copyright 2020-2024 (C) Pjotr Prins.
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