Bioconductor Degreport

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9.1k

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DEGreport DegPlot

updated 3.9 years ago by Kevin Blighe ★ 3.9k • written 3.9 years ago by kavator ▴ 30

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915

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RNASeqData DEGreport edgeR

3.1 years ago Wuschel ▴ 10

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3.3k

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DESeq2 RNASeq DEGreport

updated 17 months ago by Michael Love 41k • written 3.1 years ago by Giulia ▴ 10

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1.6k

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DEGreport deseq2

updated 5.0 years ago by Lorena Pantano ▴ 120 • written 5.0 years ago by lqsdau ▴ 10

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875

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DEGreport

updated 4.0 years ago by Lorena Pantano ▴ 120 • written 4.0 years ago by kavator ▴ 30

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2.9k

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DEGreport

updated 7 months ago by James W. MacDonald 65k • written 18 months ago by marinaw ▴ 20

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1.6k

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BiocGenerics DESeq2 DEGreport RNASeqData DEG

updated 21 months ago by James W. MacDonald 65k • written 21 months ago by Diya • 0

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834

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DEGseq clusterProfiler DEGreport

17 months ago Rob • 0

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2.4k

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DEGreport

updated 4.0 years ago by Martin Morgan 25k • written 4.0 years ago by kavator ▴ 30

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570

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limma DEGreport Volcanoplot

updated 15 months ago by Gordon Smyth 50k • written 15 months ago by Mohammad • 0

10 results • Page 1 of 1

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Comment: DESeq filtering specific to contrasts by Carlin95 • 0

But wouldn't this result in a different gene set for each analysis stratification? How can you then compare if maybe gene x comes up in Tim…

Comment: Reading huge bismark coverage files using bbseq::read.bismark by jacques.imbert • 0

Hello, Using nThread = 1L fixed the issue. Thank you for your time and help.

Comment: Error in champ.load(): The following specified files do not exist by Basti ▴ 760

The error stems from the Basename column, please see solution here : https://support.bioconductor.org/p/p132482/

Comment: FilterByExpr low counts with small sample size by Gordon Smyth 50k

As always, it helps to see code. Are you running `voom` or `voomLmFit`? Did you run `normLibSizes()` in edgeR prior to `voom`? Are you star…

Comment: Batch correction and repeated measures by Gordon Smyth 50k

In your code, it was clear that `expr.mat` was a matrix rather than a DGEList, so it has to be a count matrix. If you have a DGEList object…

Votes

Comment: Reading huge bismark coverage files using bbseq::read.bismark

Answer: Reading huge bismark coverage files using bbseq::read.bismark

Answer: How many of my genes from my gene list are in each KEGG pathway?

Comment: Light difference when using coef vs omit a group when compare 3 groups.

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