Bioconductor Isoforms

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3.8k

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dexseq bitseq cuffdiff Differential exon usage isoforms

9.7 years ago • updated 9.6 years ago elle ▴ 10

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2.8k

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edgeR ruvseq rnaseq isoforms

9.7 years ago sergio.espeso-gil • 0

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1.6k

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DEXSeq transcripts isoforms

updated 9.7 years ago by Alejandro Reyes ★ 1.9k • written 9.7 years ago by peter_venhuizen • 0

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RATs RNA-Seq Isoforms DTU expression

updated 5.6 years ago by fruce_ki ▴ 20 • written 5.6 years ago by UserAnonyme • 0

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1.0k

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isoforms DESeq2

2.9 years ago arfranco ▴ 130

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1.7k

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isoforms diffrential expression noncoding rna TSIS isoformswitchanalyzeR

6.7 years ago rbenel ▴ 40

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cummerbund heatmap isoforms transcript_id

7.8 years ago domenico.somma • 0

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1.1k

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dexseq differential isoform usage isoforms summarizeoverlaps granges

6.8 years ago A ▴ 40

8 results • Page 1 of 1

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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…

Comment: Recount3 data correspond to TCGA data by Leonardo Collado Torres ★ 1.1k

Thanks @fep29! ^^

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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Popular Question to Robert Castelo ★ 3.4k

Popular Question to Robert Ivanek ▴ 750