Package: wnpp Severity: wishlist Subject: ITP: vcfanno -- annotate a VCF with other VCFs/BEDs/tabixed files Package: wnpp Owner: Andreas Tille <ti...@debian.org> Severity: wishlist
* Package name : vcfanno Version : 0.3.2+ds Upstream Author : Brent Pedersen and Aaron Quinlan * URL : https://github.com/brentp/vcfanno * License : MIT Programming Lang: Python 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. Remark: This package is maintained by Debian Med Packaging Team at https://salsa.debian.org/med-team/vcfanno
