FreeBSD Manual Pages
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 2011-2025 (C) Erik Garrison and vcflib contributors. MIT li- censed. Copyright 2020-2025 (C) Pjotr Prins. AUTHORS Erik Garrison and vcflib contributors. smoother (vcflib) SMOOTHER(1)
NAME | SYNOPSIS | DESCRIPTION | OPTIONS | EXIT VALUES | SEE ALSO | OTHER | LICENSE | AUTHORS
Want to link to this manual page? Use this URL:
<https://man.freebsd.org/cgi/man.cgi?query=smoother&sektion=1&manpath=FreeBSD+Ports+15.0>