Bioconductor Msigdb

Showing : msigdb • reset

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1.2k

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GSEABase fgsea msigdb GeneSetEnrichment

15 months ago Assa Yeroslaviz ★ 1.5k

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559

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msigdb fgsea msig

17 months ago Tanvi • 0

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1.1k

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geneset GeneSetEnrichment msigdb

20 months ago Seongsu • 0

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1.3k

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msigdb gmt GSEA

written 20 months ago by Georg • 0

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4.8k

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ssgsea GSVA biotype proteincoding msigdb

updated 14 months ago by tifaGis • 0 • written 2.0 years ago by snijesh ▴ 200

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2.5k

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msigdb GSEABase GSVA

updated 3.7 years ago by Robert Castelo ★ 3.4k • written 3.7 years ago by forlani.luca • 0

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2.6k

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gseabase msigdb genesetcollection Tutorial

written 7.5 years ago by t.kuilman ▴ 170

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5.5k

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clusterprofiler GSEA MSIGDB

updated 7.7 years ago by Guangchuang Yu ★ 1.2k • written 7.7 years ago by thomasjenner333 • 0

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1.8k

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limma romer msigdb

updated 10.3 years ago by James W. MacDonald 68k • written 10.3 years ago by Jon Manning ▴ 40

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1.7k

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category gostats msigdb hypergeometric test

10.3 years ago petyuk ▴ 70

10 results • Page 1 of 1

Recent ...

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Answer: PTM analysis in LIMPA by Gordon Smyth 53k

For PTM analysis, the usual quantification command dpcQuant() is replaced by dpcImpute(). Otherwise the limpa pipeline is the same as for a…

Answer: problem reading bam files into nucleR by James W. MacDonald 68k

The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…

Answer: Question about DESeq2 Design for Paired Treatment Study by ATpoint ★ 5.0k

It's a paired analysis so you don't need any patient-specific covariates such as age and sex. What you call batch effect might just be the …

Comment: problem reading bam files into nucleR by efoss ▴ 10

I thought I might be able to track down a problematic line in the bam file by repeatedly splitting the bam file in and then running the co…

Answer: two questions about limma by Gordon Smyth 53k

Answered here: https://support.bioconductor.org/p/16318/

Votes

C: DESeq2 Following RSEM

Upcoming Ensembl API and data access changes - new blog post available

Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?

Answer: Large logFC but somewhat high FDR

Comment: upstream git branches of bioc-release

Awards • All

Commentator to sina.nassiri ▴ 130