[Debian-med-packaging] Bug#926978: ITP: biobambam2 -- tools for early stage alignment file processing

[Andreas Tille]

Package: wnpp
Severity: wishlist

Subject: ITP: biobambam2 -- tools for early stage alignment file processing
Package: wnpp
Owner: Andreas Tille <tille at debian.org>
Severity: wishlist

* Package name    : biobambam2
  Version         : 2.0.95
  Upstream Author : German Tischler <tischler at mpi-cbg.de>
* URL             : https://gitlab.com/german.tischler/biobambam2
* License         : GPL-3+
  Programming Lang: C++
  Description     : tools for early stage alignment file processing
 This package contains some tools for processing BAM files including
 .
   bamsormadup:  parallel sorting and duplicate marking
   bamcollate2:  reads BAM and writes BAM reordered such that alignment
                 or collated by query name
   bammarkduplicates: reads BAM and writes BAM with duplicate alignments
                 marked using the BAM flags field
   bammaskflags: reads BAM and writes BAM while masking (removing) bits
                 from the flags column
   bamrecompress: reads BAM and writes BAM with a defined compression
                  setting. This tool is capable of multi-threading.
   bamsort:       reads BAM and writes BAM resorted by coordinates or
                  query name
   bamtofastq:    reads BAM and writes FastQ; output can be collated
                  or uncollated by query name

Remark: This package is maintained by Debian Med Packaging Team at
   https://salsa.debian.org/med-team/biobambam2