pvaluecutoff meaning in enrichKEGG
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Last seen 3.3 years ago

I'm analyzing rna seq data and am using the enrichKEGG function. While I understand what the q value is (at least according to this paper:https://www.nature.com/articles/s41596-018-0103-9), what I don't understand is what the pvaluecutoff is. Is that the cutoff for genes that will be fed into this function? Is that the value of significance that I set so that the program will only spit out what is significant at that level? If so, how is that different than q value? So long as my q value remains less than 0.05, is it ever appropriate to feed in genes that are differentially expressed with a p value of greater than .05? I'm assuming the answer is no, but I wanted to check just in case.

KEGG RNAseq • 418 views

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