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13 results • Page 1 of 1

Recent ...

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Answer: Interaction terms in DESeq2 by James W. MacDonald 64k

You shouldn't use replicate as a coefficient in your model. That will do one of two things that you don't want. If the replicate values are…

Comment: JoinLayers function for Seurat Object for annotation with SingleR by Bine ▴ 20

Ok thanks, done. Shall I delete this post?

Comment: rDGIdb package inconsistency with web interface by christopherjamessteel1990 • 0

The address I linked (https://www.dgidb.org/api) does not state 'The previous version of DGIdb can be found at old.dgidb.org until June 1st…

Comment: JoinLayers function for Seurat Object for annotation with SingleR by ATpoint ★ 3.6k

Please ask at biostars.org for Seurat help which is not a Bioconductor package. As said, SingleR is generic as it can start from a matrix a…

Comment: DESeq2 : stat or lfcshrink for GSEA analysis by ATpoint ★ 3.6k

Both are fine, though for many that I talked to the shrunken logFCs are a more intuitive choice and probably a more direct measurement of t…

Votes

How to know if I should use voomWithQualityWeights() or not?

Asses fit of variance prior

Comment: DESeq2 - batch, condition and tissue information

Answer: ScRNAseq analysis scran :: quickcluster Error

Comment: Ensembl down???

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Popular Question to Frederik Ziebell ▴ 20