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  • crh
    Member
    • Dec 2009
    • 46
    #1

    cuffdiff log2(FC) when 1 condition has 0 counts

    Hi

    Working our way thru the cuffdiff output and see that when one condition has 0 counts cuffdiff must utilize a fudge factor and reports a value of -1.79769e+308.
    In most cases where the other condition has low counts (< 1) this is easy to deal with, but are there cases when the other condition has modest counts (> 5) could this be a problem?

    Charles


    XLOC_000036 XLOC_000036 Cre01.g003100 chromosome_1:529710-533599 replete deplete NOTEST 0.0567616 0 -1.79769e+308 -1.79769e+308 0.233265 1 no
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