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Replies
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
Michael Love
41k
But just to be clear, this is not the same as regressing out batch from the VST (approx log transformed):
```
limma::removeBatchEffect(cou…
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
HAK
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0
Thank you for the explanation, probably my brain just needed to accumulate enough info to understand what you are saying, but I finally got…
Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call
by
ATpoint
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Here the error probably means that you habe genes where expression scross all samples is the same. Rowscaling is value minus mean divided b…
Comment: Store output of matchPWM()
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James W. MacDonald
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Here's a self contained reproducible example, using part of the example in `?matchPWM`
```
> library(Biostrings)
> data(HNF4alpha)
> libr…
Comment: DEseq2 coefficient
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JKim
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Hi Dr. Love,
I'm sorry to ask another question to my old post.
If the design isn't balanced, the interpretation of coefficients will be…
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