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  • ymc
    Senior Member
    • Mar 2010
    • 496
    #1

    How to align diploid ab1 files to the reference genome?

    I have some human ab1 chromatogram files. Is it possible to align them to the reference genome and get the bam file? How to do that? Thanks in advance!
    Tags: None
    • swbarnes2
      Senior Member
      • May 2008
      • 910
      #2
      If you can convert them to fastas, or fastqs, you might be able to use a short-read aligner to ailgn them and make .bams. Or maybe one of tha blast output formats can be converted

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        • ymc
          Senior Member
          • Mar 2010
          • 496
          #3
          Can short read aligner handle fastq with heterozygous nucleotide calls (ie, M, R, S, Y, K, etc)??

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