1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
|
.\" Automatically generated by Pandoc 2.7.3
.\"
.TH "PERMUTEGPAT++" "1" "" "permuteGPAT++ (vcflib)" "permuteGPAT++ (VCF phenotype)"
.hy
.SH NAME
.PP
\f[B]permuteGPAT++\f[R]
.SH SYNOPSIS
.PP
\f[B]permuteGPAT++\f[R] -f gpat.txt -n 5 -s 1
.SH DESCRIPTION
.PP
\f[B]permuteGPAT++\f[R] is a method for adding empirical p-values to a
GPAT++ score.
.SH OPTIONS
.IP
.nf
\f[C]
Currently **permuteGPAT++** only supports wcFst, but will be extended.
OUTPUT: **permuteGPAT++** will append three additional columns:
1. The number of successes
2. The number of trials
3. The empirical p-value
file: f -- argument: the input file
number: n -- argument: the number of permutations to run for each value [1000]
success: s -- argument: stop permutations after \[aq]s\[aq] successes [1]
Type: phenotype
\f[R]
.fi
.SH EXIT VALUES
.TP
.B \f[B]0\f[R]
Success
.TP
.B \f[B]not 0\f[R]
Failure
.SH SEE ALSO
.PP
\f[B]vcflib\f[R](1)
.SH OTHER
.SH LICENSE
.PP
Copyright 2011-2020 (C) Erik Garrison and vcflib contributors.
MIT licensed.
.SH AUTHORS
Erik Garrison and vcflib contributors.
|
