Bioconductor DESEq

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DESeq2 deseq

7 weeks ago Meme • 0

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318

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deseq DESeq2

updated 4 months ago by ATpoint ★ 4.0k • written 4 months ago by Hugo • 0

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498

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deseq DESeq2

5 months ago • updated 4 months ago georgii.vdovin • 0

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363

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Deseq DESeq2

updated 5 months ago by Michael Love 41k • written 5 months ago by georgii.vdovin • 0

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622

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Z-score RNASeqData Deseq DESeq2

updated 7 months ago by James W. MacDonald 65k • written 7 months ago by khaserdene99 • 0

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826

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DESeq DESeq2

updated 8 months ago by ATpoint ★ 4.0k • written 8 months ago by Abir.khazaal ▴ 10

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615

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DESeq2 apeglm DESeq ApeGLM Ashr

updated 9 months ago by Michael Love 41k • written 9 months ago by Ndimensional ▴ 20

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598

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DESeq2 deseq txime tximeta

updated 12 months ago by Michael Love 41k • written 12 months ago by akrunic • 0

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5.5k

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ERROR: configuration failed for package ‘RCurl’ DESeq

written 4.0 years ago by krunal.24.6 ▴ 10

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26k

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deseq deseq2

updated 8 months ago by Erika • 0 • written 9.2 years ago by c.lieftink@nki.nl ▴ 40

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Comment: DESeq2 setting significant p-value by Dev • 0

after running DESeq2 does it sort the value on the basis of pvalue, or anything, or does it give the data back in the input format I have …

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…

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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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