Bioconductor Nested

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811

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DESeq2 multifactorial nested

updated 2.8 years ago by Basti ▴ 780 • written 2.8 years ago by jd • 0

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1.7k

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nested DESeq2

updated 3.9 years ago by Michael Love 43k • written 4.0 years ago by yampolsk • 0

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1.6k

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deseq2 Phyloseq Nested

updated 5.7 years ago by Michael Love 43k • written 5.7 years ago by mpuli011 • 0

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1.3k

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deseq2 Paired Nested

updated 5.9 years ago by Michael Love 43k • written 5.9 years ago by julia.chariker ▴ 10

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1.6k

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deseq2 nested de

updated 6.1 years ago by Michael Love 43k • written 6.1 years ago by gaio.transposon • 0

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1.9k

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edgeR nested glm glmQLFit

updated 6.7 years ago by Aaron Lun ★ 29k • written 6.7 years ago by jcalis ▴ 10

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2.9k

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edger nested design matrix differential expression

updated 10.8 years ago by Aaron Lun ★ 29k • written 10.8 years ago by Mauve • 0

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2.4k

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edger nested estimatedispersions

10.9 years ago Mauve • 0

8 results • Page 1 of 1

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Answer: segfault in edgeR glmQLFit by Gordon Smyth 53k

Dear Mark, Thank you for providing a reproducible example. I confirm that I can reproduce the segfault myself on my own computer. We will …

Answer: DESeq2 - how many surrogate variables from svaseq, use of lfcshrink by aqeel • 0

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Comment: How does contrasts.fit do in limma to extract comparisons with a model having in by Gordon Smyth 53k

I refered you to the DiffVar package 11 months ago. Did you consider it? Your clarification makes it clear that your issue is not with lim…

Comment: How does contrasts.fit do in limma to extract comparisons with a model having in by jtsy6383 • 0

Thanks for the reply Gordon. I am also working on the project and have been tasked to reformulate and add some details. We're interested i…

Answer: How does contrasts.fit do in limma to extract comparisons with a model having in by Gordon Smyth 53k

The limma Users Guide explains how to test for interactions or to test for contrasts very easily. limma can work with any design matrix, bu…

Votes

C: DESeq2 Following RSEM

Upcoming Ensembl API and data access changes - new blog post available

Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?

Answer: Large logFC but somewhat high FDR

Comment: upstream git branches of bioc-release

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Popular Question to Istvan Albert ▴ 50

Popular Question to Dario Strbenac ★ 1.6k

Scholar to Nikos Ignatiadis ▴ 180