Question

DESeq2 with incorrect adjusted Pvalues

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Alexander • 0

@ef8e6160

Last seen 2.4 years ago

Germany

When using DESeq2 v1.26.0 I found a strange behaviour. The adjusted Pvalues are not BH values. Strange NA values are occuring where the non-adjusted Pvalue has normal values.

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Is this known? Is there a solution?

DESeq2 • 615 views

ADD COMMENT • link updated 2.4 years ago by Michael Love 43k • written 2.4 years ago by Alexander • 0

score 0 · Answer 1 · 2022-09-09

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swbarnes2 ★ 1.4k

@swbarnes2-14086

Last seen 7 hours ago

San Diego

The NAs are likely to be genes with super low counts; you probably don't want them anyway.

ADD COMMENT • link 2.4 years ago swbarnes2 ★ 1.4k

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Yes, there is a section of the vignette that explains the NA.

ADD REPLY • link 2.4 years ago Michael Love 43k