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3.6k

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limma edger blocking paired samples

updated 5.4 years ago by Gordon Smyth 50k • written 5.4 years ago by anou ▴ 10

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678

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voom blocking limma

updated 6 months ago by Gordon Smyth 50k • written 6 months ago by Gerhard Thallinger ▴ 180

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1.4k

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edger limma paired blocking ruvseq

updated 3.9 years ago by Gordon Smyth 50k • written 3.9 years ago by ScA • 0

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1.9k

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limma repeated measurements blocking random effects

updated 4.1 years ago by Gordon Smyth 50k • written 4.1 years ago by Jane ▴ 10

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691

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edgeR blocking

updated 2.9 years ago by Yunshun Chen ▴ 840 • written 2.9 years ago by Molly • 0

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916

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diffbind blocking model

updated 3.5 years ago by Rory Stark ★ 5.1k • written 4.5 years ago by melnuesch ▴ 10

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803

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diffbind differential binding analysis blocking

updated 6.2 years ago by Rory Stark ★ 5.1k • written 6.3 years ago by zhangly811 • 0

7 results • Page 1 of 1

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Comment: DESeq filtering specific to contrasts by Michael Love 41k

It will likely not filter it out, but really the per-dataset details would affect the results.

Comment: DESeq filtering specific to contrasts by Carlin95 • 0

Thanks for clarifying. Could I ask maybe one more thing for my sanity? Let's say you had a multi-factor experiment with contrasts including…

Comment: FilterByExpr low counts with small sample size by Jonathan ▴ 10

Thank you for your answer; However, I have some follow-up questions. Following up in In your [1-2-3 article][1], you say that > "... the…

Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa by Seyram M. • 0

Thank you very much for your reply! I will do so. Kind regards, Seyram

Comment: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0` by isaac.vock • 0

Thank you for your response. I can confirm that setting `-t exon` and/or removing `-s 1` and adding `-O` has no impact on the number of suc…

Votes

Install/Switch between multiple versions of R, Rstudio, and Bioconductor

A: Docker container with bioconductor and devtools

Answer: OrgDb for maize

Comment: significant difference of p-values with dream() after updating VariancePartition

How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output

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