Man page - smoother(1)
Packages contas 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
| SMOOTHER(1) | smoother (VCF transformation) | SMOOTHER(1) |
NAME
smoother
SYNOPSIS
smoother –format pFst –file GPA.output.txt
DESCRIPTION
smoothes is a method for window smoothing many of the GPAT++ formats.
OPTIONS
-
**smoother** averages a set of scores over a sliding genomic window.
**smoother** slides over genomic positions not the SNP indices. In other words
the number of scores within a window will not be constant. The last
window for each seqid can be smaller than the defined window size.
**smoother** automatically analyses different seqids separately. Output : 4 columns :
1. seqid
2. window start
2. window end
3. averaged score required: f,file -- argument: a file created by GPAT++ required: o,format -- argument: format of input file, case sensitive
available format options:
wcFst, pFst, bFst, iHS, xpEHH, abba-baba, col3 optional: w,window -- argument: size of genomic window in base pairs (default 5000) optional: s,step -- argument: window step size in base pairs (default 1000) optional: t,truncate -- flag : end last window at last position (zero based) Type: transformation
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.
| smoother (vcflib) |