Bioconductor Kegg

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KEGGgraph org.Cs.eg.db clusterProfiler KEGG AnnotationHubSoftware

updated 2 days ago by James W. MacDonald 65k • written 2 days ago by fernanda.backsouza ▴ 10

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278

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clusterProfiler GenomicDistributionsData KEGG

4 days ago • updated 1 day ago fernanda.backsouza ▴ 10

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164

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KEGGREST GenomicDistributionsData KEGGgraph KEGG

updated 4 days ago by Guido Hooiveld ★ 3.9k • written 6 days ago by fernanda.backsouza ▴ 10

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169

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Pathways clusterProfiler gseKEGG KEGG

13 days ago julia_mcdonough • 0

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237

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enrichKEGG KEGGgraph KEGG

updated 9 weeks ago by Guido Hooiveld ★ 3.9k • written 9 weeks ago by cinzia.spagnoli • 0

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344

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KEGGREST KEGG RNASeq

5 months ago mch • 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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345

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axolotl KEGG GOstats clusterProfiler

9 months ago georgii.vdovin • 0

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1.0k

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pathview KEGG Oryza_sativa

10 months ago Jiyoung Lee • 0

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556

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timecourse KEGG DESeq2

updated 10 months ago by Michael Love 41k • written 11 months ago by Fred • 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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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 9 weeks ago by cinzia.spagnoli • 0 • written 22 months ago by AP • 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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1.5k

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kegg enrichkegg clusterprofiler

updated 4 months ago by EvaLan • 0 • written 5.7 years ago by bekah ▴ 40

18 results • Page 1 of 1

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Answer: ATACseq merge peaks by ATpoint ★ 4.0k

That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…

Comment: Deseq2. decontXcounts not integers. Useful alternative? by camp ▴ 10

Yes, @atpoint is correct. decontX decontaminated counts are not integers due to the way the variation inference algorithm works, but you ca…

Comment: Deseq2. decontXcounts not integers. Useful alternative? by ATpoint ★ 4.0k

I do not know this decontamination tool you use but generally: If these counts are basically "corrected" raw counts in the sense that they'…

Answer: Improving the design matrices vignette in RNAseq123 by Gordon Smyth 50k

Thanks to Shian Su, we have confirmed that the problem in the design matrices vignette html is caused by a bug in knitr 1.44 (to do with sp…

Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by winwater0928 • 0

Thank you for your comment! I'll review my code from top to bottom.

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Comment: Deseq2. decontXcounts not integers. Useful alternative?

Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)

biomaRt error: database disk image is malformed

Comment: biomaRt : No lock file for BiocFileCache

Answer: Cross-species analysis - how to compute the mid parent value?

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Popular Question to James W. MacDonald 65k

Scholar to Michael Love 41k

Supporter to JKim • 0