Bioconductor Phenotest

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phenoTest phenoTest

updated 11.7 years ago by James W. MacDonald 67k • written 11.7 years ago by Jon Manning ▴ 90

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1.3k

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Survival phenoTest Survival phenoTest

updated 13.2 years ago by Heidi Dvinge ★ 2.0k • written 13.2 years ago by Adrian Johnson ▴ 330

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1.6k

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Pathways GO hgu133a hgu95av2 phenoTest Pathways GO hgu133a hgu95av2 phenoTest

10.5 years ago Kostas Kerkentzes ▴ 10

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phenoTest

7.0 years ago Damien Croteau-Chonka ▴ 10

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310

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starallele phenoTest

updated 10 months ago by James W. MacDonald 67k • written 10 months ago by greeshmathulasi1 • 0

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Comment: How to use removeBatchEffect for removing effect of multiple confounding variabl by James W. MacDonald 67k

Please don't add questions onto a four-year old post. Instead, start a new one. If you want to reference the old post, that's fine.

Answer: How to use removeBatchEffect for removing effect of multiple confounding variabl by bioinformata • 0

Is it feasible to remove batch effect with limma after variance stabilizing transformation of the gene expression , or is eough to use vst…

Comment: clusterProfiler: BgRatio N value does not match the size of the gene universe th by James W. MacDonald 67k

Hi Guido, It's that last filtering step. You are saying the NCBI Gene ID has to be unique AND the ontology has to be BP, which isn't what …

Comment: AffylmGUI does not start wit R 4.4.1 by richardallenfriedmanbrooklyn ▴ 20

Gordon, I found out what went wrong. The problem was that the xquartz distribution for mac from cran did not include tcltk! I found that b…

Comment: clusterProfiler: BgRatio N value does not match the size of the gene universe th by Guido Hooiveld ★ 4.1k

Hi James, I am likely missing something obvious, but why is the code that I used returning a different number of genes having a GOALL-BP a…

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Comment: clusterProfiler: BgRatio N value does not match the size of the gene universe th

Answer: Question: How to Set Up Contrasts for Case-Control Analysis in Limma While Adjus

Answer: clusterProfiler: BgRatio N value does not match the size of the gene universe th

Answer: object 'hdac_targets' not found

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