Bioconductor KEGG

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1.1k

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KEGG DESeq2 biomaRt clusterProfiler org.Mm.eg.db

updated 8 months ago by Guido Hooiveld ★ 3.9k • written 8 months ago by Milan ▴ 10

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212

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KEGGREST GenomicDistributionsData KEGGgraph KEGG

updated 12 days ago by Guido Hooiveld ★ 3.9k • written 15 days ago by fernanda.backsouza ▴ 10

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2.5k

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KEGG gometh

updated 11 months ago by Aung • 0 • written 14 months ago by pedro-marra ▴ 10

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562

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timecourse KEGG DESeq2

updated 11 months ago by Michael Love 41k • written 11 months ago by Fred • 0

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110

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KEGGgraph org.Cs.eg.db clusterProfiler KEGG AnnotationHubSoftware

updated 11 days ago by James W. MacDonald 65k • written 11 days ago by fernanda.backsouza ▴ 10

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1.3k

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cluster clusterProfiler KEGG

12 months ago • updated 11 months ago ruba-mahmoud • 0

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261

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enrichKEGG KEGGgraph KEGG

updated 10 weeks ago by Guido Hooiveld ★ 3.9k • written 11 weeks ago by cinzia.spagnoli • 0

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191

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Pathways clusterProfiler gseKEGG KEGG

22 days ago julia_mcdonough • 0

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1.2k

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KEGG limma

written 13 months ago by andrewsm • 0

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1.1k

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pathview KEGG Oryza_sativa

10 months ago Jiyoung Lee • 0

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1.4k

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KEGG GAGE NaN R DESeq2

updated 11 months ago by Rob • 0 • written 5.5 years ago by owen.donohoe • 0

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354

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axolotl KEGG GOstats clusterProfiler

9 months ago georgii.vdovin • 0

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355

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KEGGREST KEGG RNASeq

6 months ago mch • 0

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2.0k

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KEGG clusterProfiler

updated 3 months ago by Guido Hooiveld ★ 3.9k • written 14 months ago by ruiqi.li ▴ 10

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1.5k

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kegg enrichkegg clusterprofiler

updated 5 months ago by EvaLan • 0 • written 5.8 years ago by bekah ▴ 40

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395

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clusterProfiler GenomicDistributionsData KEGG

13 days ago • updated 10 days ago fernanda.backsouza ▴ 10

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1.9k

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clusterProfiler enrichment KEGG

updated 11 weeks ago by cinzia.spagnoli • 0 • written 23 months ago by AP • 0

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1.2k

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pathview kegg KEGG

updated 7 months ago by Benji Bromberg ▴ 20 • written 7 months ago by Mauricio Diego • 0

18 results • Page 1 of 1

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Answer: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0

Hi Michael, I think there is something wrong with the generation of nullranges. I was working with small RNA and methylation overlaps. …

Answer: Once again a "Model matrix not full rank" by swbarnes2 ★ 1.3k

Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…

Answer: limma Intercept vs No-intercept models completely changing DMR results? by Gordon Smyth 50k

I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …

Answer: package goseq seems to be not available on the latest version of R by Gordon Smyth 50k

It is true that goseq isn't available for Bioc 3.19 (as at 4 May 2024). In the meantime, you could consider using the goana() and kegga() …

Answer: limma Intercept vs No-intercept models completely changing DMR results? by James W. MacDonald 65k

This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…

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Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-

Answer: limma Intercept vs No-intercept models completely changing DMR results?

Answer: CombineArrays for EPIC and EPIC V2

Answer: Too many significant genes when integrating gtex and tcga

Comment: Too many significant genes when integrating gtex and tcga

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