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  • JohnK
    Senior Member
    • Feb 2010
    • 106

    #1

    .baf 2 BED

    Hello,

    .baf from BFAST alignment output to .BED format? Thanks.

    J
  • nilshomer
    Nils Homer
    • Nov 2008
    • 1283

    #2
    Originally posted by JohnK View Post
    Hello,

    .baf from BFAST alignment output to .BED format? Thanks.

    J
    There are many ways. You can convert the BAF file to the SAM/BAM format using the "bfast postprocess" option, which you should use anyways to prioritize alignments. Then you can write your own program or check out this thread to convert SAM/BAM to BED.

    Comment

    • ECO
      --Site Admin--
      • Oct 2007
      • 1360

      #3
      I think it's time for a giant table of file formats..."I have" vs "I want"....

      Comment

      • JohnK
        Senior Member
        • Feb 2010
        • 106

        #4
        Originally posted by ECO View Post
        I think it's time for a giant table of file formats..."I have" vs "I want"....
        That'd be huge.

        Comment

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