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  • Nihil347
    Junior Member
    • May 2013
    • 4
    #1

    Piping with pbwa on computercluster

    Hi

    First I'm complitly new, not only here but general in writing stuff in forums. So if I drop a brick, please tell me

    I'm currently working with pbwa on a comutercluster and wonder if there is a way to pipe the output from pbwa samse/sampe directly to samtools view to get a bamfile in one step. With the regular bwa on a regular machine it is no problem of course, but with pbwa I just don't get it.

    Any advices?

    Greetings
    Tags: None
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