Package: biobambam2 (2.0.185+ds-1) [debports]

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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

depends

recommends

suggests

enhances

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 (>= 2.0.812+ds)

collection of data structures and algorithms for biobambam
dep: libstdc++6 (>= 11)

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)	10,029.6 kB	81,440.0 kB	[list of files]