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  • DESeq high withing group dispersion

    Hi forum,

    I am analyzing counts data from Tophat bam followed by HTSeq.
    I have 11 biological replicates for group 1 and 10 biological replicates for group 2.

    Looking at the attached dispersion plots, is it a fair interpretation that there
    is too much within group dispersion (most values around 1) and within group dispersion is simply too large for anything called differentially expressed? I found ~150 genes with p<0.05 and none of the survived 0.1 FDR (giving padj=1 for all).

    What'd would be a suggested way to analyze this data further?

    Regards,

    WDT
    Attached Files
    Last edited by wdt; 07-16-2012, 04:28 PM. Reason: typo correction

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