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edger nested design matrix differential expression

updated 9.2 years ago by Aaron Lun ★ 28k • written 9.2 years ago by Mauve • 0

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1.8k

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edger nested estimatedispersions

9.2 years ago Mauve • 0

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1.1k

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edgeR nested glm glmQLFit

updated 5.0 years ago by Aaron Lun ★ 28k • written 5.0 years ago by jcalis ▴ 10

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1.0k

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nested DESeq2

updated 2.2 years ago by Michael Love 41k • written 2.3 years ago by yampolsk • 0

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1.0k

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deseq2 Phyloseq Nested

updated 4.1 years ago by Michael Love 41k • written 4.1 years ago by mpuli011 • 0

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977

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deseq2 nested de

updated 4.4 years ago by Michael Love 41k • written 4.4 years ago by gaio.transposon • 0

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746

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deseq2 Paired Nested

updated 4.3 years ago by Michael Love 41k • written 4.3 years ago by julia.chariker ▴ 10

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408

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DESeq2 multifactorial nested

updated 13 months ago by Basti ▴ 770 • written 13 months ago by jd • 0

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Comment: How to retrieve detailed regression results from deseq2 by Weiqian ▴ 10

Hi Michael, thanks for the answer! I'll have a look : )

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

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Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)

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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Popular Question to James W. MacDonald 65k