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  • wjeck
    Member
    • Mar 2009
    • 39
    #1

    BAM header surgery

    To follow up on another "how to" question, does anyone know of tools to get in and edit *.bam file headers? So for example if I want to fix some info about readgroups, sequence lengths or comments I can get in there and add/change them?

    I've looked for such a tool, but did not find.
    Tags: None
    • drio
      Senior Member
      • Oct 2008
      • 323
      #2
      You want to use the picard tools (http://picard.sourceforge.net/).
      Study carefully the examples and the documentation.
      -drd

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        • wjeck
          Member
          • Mar 2009
          • 39
          #3
          Thanks! I was looking for ReplaceSamHeader, not included in the picard distribution I was working with.

          It appears to work with unindexed BAM files as well as SAM.

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