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areyesq89 / DEXSeq

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DEXSeq NA values in Log2Fold (#10 reopened) #12

Closed parcbioinfo closed 2 years ago

parcbioinfo commented 2 years ago

I have the same question as Aufiero: "How the pvalues and pAdj for those exons are then calculated if Log2FC is NA?" Could you clarify?

Originally posted by @pdarakjiank in https://github.com/areyesq89/DEXSeq/issues/10#issuecomment-1075737486

areyesq89 commented 2 years ago

Thanks for your question @pdarakjiank. Two separate fits are done to calculate p-values and to calculate effect sizes. For more details please check the publication and the vignettes. If any of those fits fail to converge, then NAs are reported.

parcbioinfo commented 2 years ago

Thanks; that's what I wanted to make sure I had understood.