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[ Source: biobambam2  ]

Package: biobambam2 (2.0.179+ds-1)

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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

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Download for all available architectures
Architecture Package Size Installed Size Files
amd64 9,201.5 kB65,075.0 kB [list of files]
arm64 8,442.3 kB61,559.0 kB [list of files]
i386 9,888.3 kB73,243.0 kB [list of files]
ppc64el 9,076.5 kB79,263.0 kB [list of files]