Bioconductor DEGreport

Showing : DEGreport • reset

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574

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limma DEGreport Volcanoplot

updated 16 months ago by Gordon Smyth 50k • written 16 months ago by Mohammad • 0

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847

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DEGseq clusterProfiler DEGreport

17 months ago Rob • 0

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2.9k

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DEGreport

updated 8 months ago by James W. MacDonald 65k • written 19 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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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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920

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RNASeqData DEGreport edgeR

3.2 years ago Wuschel ▴ 10

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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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880

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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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2.4k

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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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1.6k

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DEGreport deseq2

updated 5.1 years ago by Lorena Pantano ▴ 120 • written 5.1 years ago by lqsdau ▴ 10

10 results • Page 1 of 1

Recent ...

Replies

Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by Alexandre • 0

Hello James, Thank you for your answer and precise exemple ! It is disappointing but makes sense. Best, Alexandre

Comment: How to retrieve gene ontology GO class from gene list? by James W. MacDonald 65k

Yes. The `keys` argument to both `select` and `mapIds` will accept a vector (see `?select` for more information). Also, the [vignette][1] f…

Comment: How to retrieve gene ontology GO class from gene list? by bandconductor • 0

Thanks, this is potentially a much faster way than parsing BiomRt. However, it is only returning one GO term right now (biomaRt returns a f…

Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by James W. MacDonald 65k

Both `RUVseq` and `sva` are meant to be used to remove technical variability. The problem is the identification of variability that is tech…

Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by Alexandre • 0

Hello James, Thank you very much for your answer and taking the time to read my post. I understand your remark, but isn't the approach o…

Votes

Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2

Answer: Use of negative binomial model for exponential decay rate estimation using DESeq

C: null model and DEXSeqDataSet object in DEXSEQ

A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?

Awards • All

Scholar to James W. MacDonald 65k

Supporter to JKim • 0