Bioconductor For loop

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1.4k

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flowdensity flowcore for loop

updated 5.9 years ago by Bioconductor Community 0 • written 6.0 years ago by beshea.jj • 0

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917

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drimseq swimming downstream for loop sapply

updated 6.0 years ago by Martin Morgan 25k • written 6.0 years ago by georgewwp • 0

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1.0k

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densityplot stacked for loop

6.5 years ago k.teijgeler • 0

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1.5k

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Exprs Lapply FCS for loop flowcore

updated 7.1 years ago by Jiang, Mike ★ 1.3k • written 7.1 years ago by Wilson Yeo • 0

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4.8k

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ComplexHeatmap for loop Heatmap function

updated 2.3 years ago by chm • 0 • written 8.3 years ago by An De Bondt ▴ 40

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2.2k

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edger forloop

updated 3.6 years ago by Gordon Smyth 51k • written 8.3 years ago by humberto_munoz • 0

6 results • Page 1 of 1

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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 …

Comment: ANOVA like approach of edgeR by SamGG ▴ 350

Simply remove the cell type from the model. design <- model.matrix(~targets$Status)

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

You could try the followings: > design <- model.matrix(~ 0 + group) > contrast <- makeContrasts(PvsL = 0.5*(L.pregnant + B.pregnan…

Answer: Identical samples after deseq2 batch effect removal by maripane • 0

Thanks Michael, so is there a way to work around this issue? Can I somehow make sure I can remove this batch effects without overcorrecti…

Votes

Answer: ANOVA like approach of edgeR

A: ANOVA-like test with edgeR

Answer: CleanUpRNAseq with a GTF that is missing mitochondria annotation data

A: TopGO: How to retrieve the gene list related to a GO ID ?

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