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  • a question about merge bam files

    I want to ask a question about bam files.

    I have 2 sequencing library in a same sample, and get 2 fastq files, the length of reads are 50bp and 36bp separately.
    When I do tophat, because I need to specify the -r, I cannot merge the two fastq files. But after I got the accepted.bam files, can I merge them (bam files) with the samtools merge?

    I need to do cufflinks and cuffdiff using the merged bam files.

    thanks everyone.

  • #2
    I have the same question.

    Comment


    • #3
      This question was crossposted here: http://seqanswers.com/forums/showthread.php?t=14980

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