Bioconductor Bambu

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bambu

updated 17 months ago by Jonathan Göke ▴ 50 • written 18 months ago by Sheetal • 0

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560

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BAMBU bambu

20 months ago • updated 19 months ago Seongwoo Han ▴ 10

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549

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BAMBU bambu

updated 19 months ago by Andre ▴ 20 • written 19 months ago by Seongwoo Han ▴ 10

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690

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BAMBU bambu

updated 18 months ago by Sheetal • 0 • written 19 months ago by Seongwoo Han ▴ 10

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685

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txdb bambu

updated 10 months ago by andre_sim ▴ 20 • written 10 months ago by camilia.savitri • 0

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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. 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…

Votes

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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