Bioconductor DEanalysis

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DEanalysis limma olinktargetedproteomics

11 months ago • updated 10 months ago svlachavas ▴ 840

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FPKM RNASeqData DEAnalysis limma

2.3 years ago Ethan Nguyen • 0

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edgeR deanalysis test fisher exact

updated 7.9 years ago by Aaron Lun ★ 29k • written 7.9 years ago by thkapell ▴ 10

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edgeR rnaseq DEanalysis TCGA independent filtering

8.1 years ago svlachavas ▴ 840

4 results • Page 1 of 1

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Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Martin Morgan 25k

I see rstudioapi in the `sessionInfo()`. RStudio does not support forked ('multicore') processes. Does the BiocParallel example work when y…

Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k

Given that this is an issue with BiocParallel on your machine and we have a minimal reproducible example, you may want to repost the issue.…

Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Benjamin • 0

Still happening using pre-existing size factors estimating dispersions gene-wise dispersion estimates: 15 workers mean-dis…

Answer: BiocParallel (and DESeq2) - wrong args for environment subassignment by Benjamin • 0

Still happening in a clean install

Comment: limpa analysis advice by Gordon Smyth 53k

Yes, we use Astral currently. The main dataset in the limpa preprint is Astral. I don't see any major problems with your data and I think …

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A: Filtering read counts matrix: how to deal with duplicated gene symbols, differen

Comment: limpa analysis advice

Answer: When to use edgeR or limma

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