Bioconductor Estimatecellcounts

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minfi cell proportion estimateCellCounts DNA Methylation

4.7 years ago grayapply2009 • 0

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minfi estimatecellcounts

6.2 years ago a.webster • 0

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2.2k

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minfi estimatecellcounts getSex preprocessQuantile

updated 6.4 years ago by Kasper Daniel Hansen ★ 6.5k • written 6.4 years ago by fgc • 0

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limma sva duplicatecorrelation estimatecellcounts

updated 7.1 years ago by Aaron Lun ★ 28k • written 7.1 years ago by wliao • 0

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2.0k

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minfi estimateCellCounts methylation

updated 7.5 years ago by Kasper Daniel Hansen ★ 6.5k • written 7.5 years ago by stewart999 ▴ 10

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Comment: WGCNA with TPM tables by ATpoint ★ 4.5k

WGCNA is not a Bioconductor package, but generally: If you want to do serious analysis then find the raw data. There is no guarantee what …

Comment: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac ( by Paul • 0

You are an absolute lifesaver, thank you so much for the clarification!

Answer: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac ( by James W. MacDonald 67k

The `EnsDb.Mmusculus.v79` package is mm38, not mm39. If you want a current `EnsDb`, use `AnnotationHub` ``` > library(AnnotationHub) >…

Comment: Identical samples after deseq2 batch effect removal by Michael Love 42k

I'm adding my comment to the threaded section ... I don't have any suggestions here but whatever method you're using is not appropriate up…

Comment: ANOVA like approach of edgeR by Yunshun Chen ▴ 880

If you do it this way, the dispersion estimates would be much higher than they should (as the cell type difference is not accounted for in …

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Answer: ANOVA like approach of edgeR

A: ANOVA-like test with edgeR

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