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  • 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!

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

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