SMOOTHER

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

AUTHORS

Erik Garrison and vcflib contributors.