Package: vcfanno (0.3.5+ds-2 and others)

[ Source: 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.

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.

Other Packages Related to vcfanno

• dep: libc6 (>= 2.34) [not alpha]

  GNU C Library: Shared libraries
  also a virtual package provided by libc6-udeb

• dep: libc6.1 (>= 2.34) [alpha]

  GNU C Library: Shared libraries
  also a virtual package provided by libc6.1-udeb

• dep: libgcc-s1 (>= 3.3.1) [ppc64, x32]

  GCC support library

  dep: libgcc-s1 (>= 3.4) [alpha, sparc64]

• dep: libgo22 [alpha, ppc64, sparc64, x32]

  Runtime library for GNU Go applications

Download vcfanno

Download for all available architectures

Architecture	Version	Package Size	Installed Size	Files
alpha (unofficial port)	0.3.5+ds-2	625.6 kB	3,140.0 kB	[list of files]
amd64	0.3.5+ds-2+b4	2,531.3 kB	7,622.0 kB	[list of files]
arm64	0.3.5+ds-2+b4	2,168.1 kB	7,282.0 kB	[list of files]
armel	0.3.5+ds-2+b4	2,153.6 kB	7,421.0 kB	[list of files]
armhf	0.3.5+ds-2+b4	2,143.5 kB	7,357.0 kB	[list of files]
i386	0.3.5+ds-2+b4	2,328.2 kB	7,342.0 kB	[list of files]
mips64el	0.3.5+ds-2+b4	1,944.6 kB	8,325.0 kB	[list of files]
ppc64 (unofficial port)	0.3.5+ds-2	727.7 kB	4,594.0 kB	[list of files]
ppc64el	0.3.5+ds-2+b4	2,154.3 kB	7,537.0 kB	[list of files]
riscv64	0.3.5+ds-2+b4	2,153.3 kB	7,217.0 kB	[list of files]
s390x	0.3.5+ds-2+b4	2,305.3 kB	8,114.0 kB	[list of files]
sparc64 (unofficial port)	0.3.5+ds-2	606.9 kB	4,930.0 kB	[list of files]
x32 (unofficial port)	0.3.5+ds-2	647.4 kB	2,660.0 kB	[list of files]