Bioconductor Geneset

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556

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geneset GeneSetEnrichment msigdb

8 months ago Seongsu • 0

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1.4k

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gseGO GeneSet clusterProfiler GeneSetEnrichment

updated 16 months ago by James W. MacDonald 67k • written 16 months ago by manuelsokolov • 0

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2.9k

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singscore GSVA GSEA subtypes geneset

updated 3.9 years ago by Dharmesh D Bhuva • 0 • written 5.7 years ago by Pietro ▴ 40

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1.2k

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GSVA geneset RNASeq TCGA subtypes

5.9 years ago Pietro ▴ 40

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2.1k

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kegg geneset genelist gage package

updated 7.3 years ago by Gordon Smyth 52k • written 7.3 years ago by sup230 ▴ 30

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1.7k

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gseabase geneset

updated 7.9 years ago by Martin Morgan 25k • written 7.9 years ago by siajunren • 0

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1.6k

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cummerbund readcufflinks geneset

8.9 years ago alessio.stevano • 0

7 results • Page 1 of 1

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Answer: scuttle::perFeatureQCMetrics runs very slow for big scRNA-seq data by Aaron Lun ★ 28k

You don't mention how your matrix data is being represented, but if it's a file-backed matrix (e.g., `HDF5Matrix` or one of its variants, b…

Comment: contrast matrix design for a continuous variable by dtzhu337 • 0

Thank you, Gordon. X is time splines for time point, and yes, it's needed. However, I was also thinking to incorporate time point with se…

Answer: contrast matrix design for a continuous variable by Gordon Smyth 52k

Yes, the design and contrasts are correct. Your analysis is also adjusted for covariates defined by X, which I assume is what you want to …

Comment: fail to use addPerROIQC in Rmd by liu.n • 0

That's odd. So it can run successfully within markdown but would be failed when knitting?

Comment: fail to use addPerROIQC in Rmd by joseph.joonsang • 0

> dim(spe) [1] 19962 425

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Answer: contrast matrix design for a continuous variable

A: What's the difference between p.adjust and qvalue?

Answer: DESeq2- merging technical vs biological replicates

Comment: What type of counts data to import for performing Isoform analysis in edgeR

Answer: What type of counts data to import for performing Isoform analysis in edgeR

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Popular Question to Ou, Jianhong ★ 1.3k