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.el \{\
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.TH "MELTEHH" "1" "" "meltEHH (vcflib)" "meltEHH (VCF statistics)"
.hy
.SH NAME
.PP
\f[B]meltEHH\f[R]
.SH SYNOPSIS
.PP
\f[B]meltEHH\f[R] \[en]target 0,1,2,3,4,5,6,7 \[en]pos 10 \[en]file
my.phased.vcf \ \[en]region chr1:1-1000 > STDOUT 2> STDERR
.SH DESCRIPTION
.SH OPTIONS
.IP
.nf
\f[C]
**meltEHH** provides the data to plot extended haplotype homozygosity
(EHH) curves and produces the data to generate the following plot:
<img src=\[dq]https://github.com/vcflib/vcflib/blob/master/examples/example-ehh.png?raw=true\[dq] alt=\[dq]\[dq] width=400>
**meltEHH** provides the data to plot EHH curves.
Output : 4 columns :
1. seqid
2. position
3. EHH
4. ref or alt [0 == ref]
Params:
required: t,target <STRING> A zero base comma separated list of target
individuals corresponding to VCF columns
required: r,region <STRING> A tabix compliant genomic range
format: \[dq]seqid:start-end\[dq] or \[dq]seqid\[dq]
required: f,file <STRING> Proper formatted and phased VCF.
required: y,type <STRING> Genotype likelihood format: GT,PL,GL,GP
required: p,position <INT> Variant position to melt.
optional: a,af <DOUBLE> Alternative alleles with frequencies less
than [0.05] are skipped.
Type: statistics
\f[R]
.fi
.SH EXIT VALUES
.TP
\f[B]0\f[R]
Success
.TP
\f[B]not 0\f[R]
Failure
.SH SEE ALSO
.PP
\f[B]vcflib\f[R](1)
.SH OTHER
.SH LICENSE
.PP
Copyright 2011-2024 (C) Erik Garrison and vcflib contributors.
MIT licensed.
Copyright 2020-2024 (C) Pjotr Prins.
.SH AUTHORS
Erik Garrison and vcflib contributors.
|
