Bioconductor Geneanswers

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geneanswers

updated 7.4 years ago by Gordon Smyth 50k • written 7.4 years ago by emiliomastriani • 0

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GeneAnswers annotation Arabidopsis GO

8.9 years ago lhuang7 ▴ 50

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geneanswers metagenome kegg

updated 7.8 years ago by Guangchuang Yu ★ 1.2k • written 9.5 years ago by francesca.defilippis ▴ 100

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goProfiles GeneAnswers goProfiles GeneAnswers

updated 11.2 years ago by Marc Carlson ★ 7.2k • written 11.2 years ago by Jose M Garcia Manteiga ▴ 310

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Network GeneAnswers Network GeneAnswers

11.5 years ago Enrico Ferrero ▴ 10

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Annotation GO oligo GeneAnswers Annotation GO oligo GeneAnswers

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GO GeneAnswers GO GeneAnswers

12.1 years ago Zhi Zhang ▴ 70

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GO GeneAnswers GO GeneAnswers

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GO GeneAnswers GO GeneAnswers

updated 12.6 years ago by James W. MacDonald 65k • written 12.6 years ago by Ou, Jianhong ★ 1.3k

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Pathways graph Rredland GeneAnswers Pathways graph Rredland GeneAnswers

13.3 years ago laurent jacob ▴ 100

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Rgraphviz GeneAnswers Rgraphviz GeneAnswers

updated 13.3 years ago by Manca Marco PATH ▴ 340 • written 13.3 years ago by john herbert ▴ 10

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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. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…

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…

Comment: CombineArrays for EPIC and EPIC V2 by Kim • 0

Thank you Tim, this is a great help in getting me started!

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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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