Package: wnpp Severity: wishlist Subject: ITP: hts-nim-tools -- tools biological sequences: bam-filter, count-reads, vcf-check Package: wnpp Owner: Steffen Moeller <moel...@debian.org> Severity: wishlist
* Package name : hts-nim-tools Version : 0.2.0 Upstream Author : Brent Pedersen <@brentp> * URL : https://github.com/brentp/hts-nim-tools * License : MIT Programming Lang: (C, C++, C#, Perl, Python, etc.) Description : tools biological sequences: bam-filter, count-reads, vcf-check This package provides several tools that (at least at the time of their creation) provide functionalities beyond the routine provided by samtools and other reverse dependencies of the htslib. . These new tools are • bam-filter : filter BAM/CRAM/SAM files with a simple expression language • count-reads : count BAM/CRAM reads in regions given in a BED file • vcf-check : check regions of a VCF against a background for missing chunks . and yes, as the name suggests, these tools are all implemented in nim, using the nim-hts (upstream: hts-nim) wrapper for the htslib. Remark: This package is maintained by Steffen Moeller at https://salsa.debian.org/med-team/hts-nim-tools
