Bioconductor GOfuncR

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GOfuncR

updated 9 months ago by Steffi Grote ▴ 10 • written 14 months ago by Marek Gierlinski ▴ 30

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analysis R GOfuncR

updated 17 months ago by Lluís Revilla Sancho ▴ 760 • written 17 months ago by Eliza • 0

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GO.db GOfuncR GO GOSim goProfiles

updated 2.1 years ago by Basti ▴ 780 • written 2.2 years ago by yeluo • 0

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GOfuncR

3.1 years ago • updated 2.5 years ago capricygcapricyg ▴ 10

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GOfuncR plot_anno_scores plot_stats

updated 6.2 years ago by steffi_grote • 0 • written 6.2 years ago by rbenel ▴ 40

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Comment: What type of counts data to import for performing Isoform analysis in edgeR by ATpoint ★ 4.5k

Probably nf-core did not run with bootstrap/gibbs replicates. Check the code. See salmon docs on how to turn that on.

Comment: What type of counts data to import for performing Isoform analysis in edgeR by mohammedtoufiq91 ▴ 10

@atpoint Thank you. I did wanted to try using the `quant.sf` files from the `salmon` run by referring edgeR user guide example `4.6 Differe…

Comment: athPkgBuilder data source :missing probesets by bobihanigujjar • 0

In this article, we'll explore the demand for unbranded BJJ Gis and the benefits of choosing unbranded Gis for customization. [does anyone …

Comment: Crossover design with limma by SamGG ▴ 360

IMHO, here are the missing annotations treatmentdrug_orderDrugPlac - treatmentplacebo_orderDrugPlac, # effect of drug for the Drug…

Answer: What type of counts data to import for performing Isoform analysis in edgeR by ATpoint ★ 4.5k

You don't need any of these files. You need the `catchSalmon` function which reads `quant.sf` and the inferential (Bootstrap/Gibbs) replica…

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Comment: ANOVA like approach of edgeR

Comment: Crossover design with limma

Answer: DESeq2 normalization vs VST vs rlog

Comment: makeContrastsDream for Interaction

Answer: Limma- Print-tip loess normalisation-printer layout information does not match M

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