Bioconductor KEGG

Showing : KEGG • reset

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2.5k

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KEGG gometh

updated 11 months ago by Aung • 0 • written 13 months ago by pedro-marra ▴ 10

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1.9k

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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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1.8k

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clusterProfiler enrichment KEGG

updated 10 weeks ago by cinzia.spagnoli • 0 • written 23 months ago by AP • 0

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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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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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1.3k

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cluster clusterProfiler KEGG

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

updated 6 months ago by Benji Bromberg ▴ 20 • written 7 months ago by Mauricio Diego • 0

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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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1.0k

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pathview KEGG Oryza_sativa

10 months ago Jiyoung Lee • 0

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557

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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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350

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clusterProfiler GenomicDistributionsData KEGG

8 days ago • updated 5 days ago fernanda.backsouza ▴ 10

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349

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KEGGREST KEGG RNASeq

6 months ago mch • 0

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346

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axolotl KEGG GOstats clusterProfiler

9 months ago georgii.vdovin • 0

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244

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enrichKEGG KEGGgraph KEGG

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

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190

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KEGGREST GenomicDistributionsData KEGGgraph KEGG

updated 7 days ago by Guido Hooiveld ★ 3.9k • written 10 days ago by fernanda.backsouza ▴ 10

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181

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Pathways clusterProfiler gseKEGG KEGG

17 days ago julia_mcdonough • 0

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KEGGgraph org.Cs.eg.db clusterProfiler KEGG AnnotationHubSoftware

updated 6 days ago by James W. MacDonald 65k • written 6 days ago by fernanda.backsouza ▴ 10

18 results • Page 1 of 1

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Comment: Assist me in determining whether the analysis process using the limma package ha by SSSJec • 0

Thanks for your reply. I understand the principle of adjusted P-values, but I still want to address that issue. The description of the G…

Comment: Why p value inconsistent when using different number of pathway score? by Gordon Smyth 50k

Just a note that fgsea is not classical GSEA. The classical GSEA as described in the Subramanian paper and other papers from the Broad Inst…

Comment: Perform gene set enrichment analysis using fgsea on two conditions that don't ha by Chris • 0

Thank you! The resource I use may mispresent the requirement input of fgsea.

Answer: Perform gene set enrichment analysis using fgsea on two conditions that don't ha by alserg ▴ 260

fgsea doesn't require the presence of deferentially expressed genes, it takes as the input the differential expression-based ranking of all…

Comment: Why p value inconsistent when using different number of pathway score? by Chris • 0

Thanks Robert for an educative response!

Votes

Answer: Improving the design matrices vignette in RNAseq123

Answer: Perform gene set enrichment analysis using fgsea on two conditions that don't ha

Comment: DESeq2: Contrast for two conditions combined versus one condition (A+B_vs_C)

Comment: Why p value inconsistent when using different number of pathway score?

Awards • All

Popular Question to Matthew Ritchie ▴ 1000

Scholar to alserg ▴ 260