Package: biobambam2 (2.0.185+ds-2) [debports]

[ Source:  ]

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

Other Packages Related to biobambam2

• dep: libc6.1 (>= 2.34)

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

• dep: libgcc-s1 (>= 3.4)

  GCC support library

• dep: libgomp1 (>= 6)

  GCC OpenMP (GOMP) support library

• dep: libmaus2-2 (>= 2.0.813+ds)

  collection of data structures and algorithms for biobambam

• dep: libstdc++6 (>= 13.1)

  GNU Standard C++ Library v3

• dep: zlib1g (>= 1:1.1.4)

  compression library - runtime

Download biobambam2

Download for all available architectures

Architecture	Package Size	Installed Size	Files
alpha (unofficial port)	9,150.3 kB	73,920.0 kB	[list of files]