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Source: vcfanno
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Andreas Tille <tille@debian.org>, Nilesh Patra <nilesh@debian.org>
Section: science
Priority: optional
Build-Depends: debhelper-compat (= 13),
dh-golang,
golang-any,
golang-github-biogo-hts-dev,
golang-gopkg-check.v1-dev,
golang-github-burntsushi-toml-dev,
golang-github-brentp-irelate-dev,
golang-github-brentp-vcfgo-dev,
golang-github-brentp-bix-dev,
golang-github-shenwei356-xopen-dev,
golang-github-pkg-errors-dev,
golang-github-brentp-goluaez-dev,
samtools,
tabix
Standards-Version: 4.6.2
Vcs-Browser: https://salsa.debian.org/med-team/vcfanno
Vcs-Git: https://salsa.debian.org/med-team/vcfanno.git
Homepage: https://github.com/brentp/vcfanno
Rules-Requires-Root: no
XS-Go-Import-Path: github.com/brentp/vcfanno
Package: vcfanno
Architecture: any
Depends: ${shlibs:Depends},
${misc:Depends}
Built-Using: ${misc:Built-Using}
Description: annotate a VCF with other VCFs/BEDs/tabixed files
Vcfanno allows you to quickly annotate your VCF with any number of INFO
fields from any number of VCFs or BED files. It uses a simple conf file
to allow the user to specify the source annotation files and fields and
how they will be added to the info of the query VCF.
.
* For VCF, values are pulled by name from the INFO field with special
cases of ID and FILTER to pull from those VCF columns.
* For BED, values are pulled from (1-based) column number.
* For BAM, depth (count), "mapq" and "seq" are currently supported.
.
Vcfanno is written in go and it supports custom user-scripts written in
Lua. It can annotate more than 8000 variants per second with 34
annotations from 9 files on a modest laptop and over 30K variants per
second using 12 processes on a server.
Package: vcfanno-examples
Architecture: all
Depends: ${shlibs:Depends},
${misc:Depends}
Multi-Arch: foreign
Description: examples for vcfanno: annotate a VCF with other VCFs/BEDs/tabixed files
Vcfanno allows you to quickly annotate your VCF with any number of INFO
fields from any number of VCFs or BED files. It uses a simple conf file
to allow the user to specify the source annotation files and fields and
how they will be added to the info of the query VCF.
.
* For VCF, values are pulled by name from the INFO field with special
cases of ID and FILTER to pull from those VCF columns.
* For BED, values are pulled from (1-based) column number.
* For BAM, depth (count), "mapq" and "seq" are currently supported.
.
This package contains a test data set as well as sample scripts
running some test suite provided by Debian also as autopkgtest.
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