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  • convert BAM -> SAM?

    how can one convert from BAM to SAM
    I can use samtools to go from SAM to BAM but not other way. samtools only outputs BAM format, does anyone know? Thanks in advance!

  • #2
    samtools -b -S in.sam > out.bam

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    • #3
      Originally posted by lvaruzza View Post
      samtools -b -S in.sam > out.bam
      is this not sam to bam? I want to go the other way (bam to sam). thanks!

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      • #4
        Read the samtools manual page at http://samtools.sourceforge.net/samtools.shtml

        samtools view in.bam > out.bam

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        • #5
          Originally posted by zee View Post
          Read the samtools manual page at http://samtools.sourceforge.net/samtools.shtml
          Thank you zee.
          By the way, the header section would be absent.
          Last edited by Daniel Su; 06-30-2010, 03:14 AM.

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