Bioconductor RNA-seq

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26k

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deseq2 rna-seq DEGs cooks cutoff

written 6.0 years ago by aishu.jp ▴ 30

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1.0k

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RNA-seq DESeq2 volcanoplot

updated 11 weeks ago by Michael Love 43k • written 11 weeks ago by nramakr ▴ 10

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345

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DESeq2 pvalue RNA-Seq

3 months ago paul.meraner • 0

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247

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biologicalnetworkanalysis genomes RNA-Seq co-expression wgcna

4 months ago Fernanda • 0

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623

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RNASeqData DESeq2 RNA-Seq RNASeq

updated 7 months ago by James W. MacDonald 67k • written 7 months ago by Ben ▴ 50

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726

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DESeq2 PCAplot RNA-Seq DesignModel

updated 8 months ago by Michael Love 43k • written 8 months ago by shaunpeterson • 0

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686

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rna-seq duplicateCorrelation limma voom

8 months ago Dylan.Sheerin • 0

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1.1k

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RNA-seq DESeq2

updated 7 months ago by ATpoint ★ 4.6k • written 8 months ago by Reza • 0

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1.1k

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rna-seq edgeR

updated 9 months ago by Gordon Smyth 52k • written 9 months ago by Netanel • 0

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961

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noiseq RNA-seq quality control

updated 8 months ago by baptiste.bidon • 0 • written 5.4 years ago by Arindam ▴ 80

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8.7k

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deseq2 edgeR rna-seq

updated 9 months ago by Elizabeth • 0 • written 9.6 years ago by gthm ▴ 30

11 results • Page 1 of 1

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Answer: Postdoc/RA position: Software Engineer For R and High-Performance Computing by delhirussianescortscom • 0

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Answer: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k

Following the discussion of this post, the package [gDNAx](https://bioconductor.org/packages/gDNAx) has been fixed in devel and release 1.4…

Answer: Selection of correct coefficients or contrasts in DESeq2 by James W. MacDonald 67k

Using R's model formulation for three-way interactions is probably not the way to go here. Or at least I wouldn't do it that way. An easier…

Comment: How to generate circular cnetplot and color nodes and edges in the same plot ? by Blandine • 0

Thank you so much ! It's working !

Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by James W. MacDonald 67k

Yes. If you have the Illumina IDs, then all the annotation data that `cpg.annotate` uses will be based on hg19. It doesn't matter if TCGA l…

Votes

A: DESeq2 interaction term

Comment: Recount3 data correspond to TCGA data

Answer: DESeq2- merging technical vs biological replicates

Answer: SingleCellExperiment convenience function for metadata+expression?

How to correct for tumor purity using DESeq2 to analyze TCGA tumor sample expression.

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