Bioconductor Msigdb

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209

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msigdb gmt GSEA

written 5 weeks ago by Georg • 0

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4.0k

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clusterprofiler GSEA MSIGDB

updated 6.1 years ago by Guangchuang Yu ★ 1.2k • written 6.1 years ago by thomasjenner333 • 0

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1.4k

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limma romer msigdb

updated 8.7 years ago by James W. MacDonald 65k • written 8.7 years ago by Jon Manning ▴ 40

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1.9k

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gseabase msigdb genesetcollection Tutorial

written 5.8 years ago by t.kuilman ▴ 170

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1.2k

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msigdb GSEABase GSVA

updated 2.1 years ago by Robert Castelo ★ 3.3k • written 2.1 years ago by forlani.luca • 0

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590

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ssgsea GSVA biotype proteincoding msigdb

updated 4 months ago by Robert Castelo ★ 3.3k • written 4 months ago by snijesh ▴ 20

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164

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geneset GeneSetEnrichment msigdb

23 days ago Seongsu • 0

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1.3k

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category gostats msigdb hypergeometric test

8.7 years ago petyuk ▴ 70

8 results • Page 1 of 1

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Answer: Reproducibility issue with scran together with lapply and BiocParallel by Aaron Lun ★ 28k

IIRC **BiocParallel** switches to a different RNG when inside its own functions like `bplapply` - specifically L'Ecuyer-CMRG, as opposed to…

Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k

This looks terrible for RNASeq data, because it's not RNASeq data. It's a matrix of pretty random numbers, which you know because you poste…

Comment: DESeq2 output used for PCA plot on R studio by Aaliya • 0

I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…

Comment: featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_ge by shuwangxinze1996 • 0

Hello, I used 48 cpus and 320G of memory to run this program. My bam files size are 7-9G, wonder how much CPU and memory is enough? Thank …

Comment: DESeq2 output used for PCA plot on R studio by Kevin Blighe ★ 3.9k

This comment helps.

Votes

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

A: How to explain how DESeq2 works to someone with zero bioinformatics background?

Answer: Interpret plot from DiffBind

Answer: How to retrieve gene ontology GO class from gene list?

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Supporter to JKim • 0