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fold change for genes with 0 reads

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  • fold change for genes with 0 reads

    I am comparing Illumina RNA-seq data sets for differentially expressed genes. A significant number of genes have 0 reads in one of the two conditions. What is the best way to include these genes? Is it acceptable to subsitute the 0 in the numerator or denominator with another number to get an approximate idea of the fold change?

    Thanks!

  • #2
    This appears to be a cross post. FAQ says not to do this...

    In case anyone lands on this one, the post that has generated discussion is here.

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    • #3
      Closed. Thanks malachig.

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