Originally posted by vebaev
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If you have 0 counts in one condition and hundreds of counts in other, this is most likely a valid signal, and DESeq should indicate this with a small p value. Of course, the fold change estimate is not to useful but that is a general problem if one of conditions has very low counts -
Yes Simon,
the =Inf are coming from rows where one of the groups are 0 and other is some reads (sometimes 5 simetimes 500)
I also found your post in other topic about these =Inf that if the last 2 columns the values are too big or close to zero I should discard these rows from further analysis?Last edited by vebaev; 08-19-2011, 12:43 AM.------------
SMART - bioinfo.uni-plovdiv.bgComment
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CRISPR/Cas9 sparked the gene editing revolution for both research and therapeutics.1 But this system still showed severe issues that limited its applications. The most prominent were the heavy reliance on PAM sequences, delivery limitations, double-stranded breaks that prompt unintended edits and cell death, and editing inefficiency (both in targeting and in knock-in reliability).
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