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  • paolo.kunder
    Member
    • Aug 2011
    • 93
    #1

    DEXSeq exonic_part_number

    Dear All,
    I am a bit confused about flattening gtf file to prepare raw counts to use with DEXSeq R package,
    I run both pyhton scripts included in the package and start to anaylze my data with R,
    I don't understand what does exonic_part_number means for in the gff flattened file, for instance if I have a gene with 8 exons why I obtain in the gff file 20 exonic_part_numbers?
    Thanks,
    Paolo
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    • Simon Anders
      Senior Member
      • Feb 2010
      • 995
      #2
      Please see Figure 1 of our paper, which should explain this. Note that, in the paper, we use the term "counting bin" rather than "exonic part". (Sorry for this inconsistency.)

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