Bioconductor Nested

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638

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DESeq2 multifactorial nested

updated 23 months ago by Basti ▴ 780 • written 23 months ago by jd • 0

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1.4k

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nested DESeq2

updated 3.0 years ago by Michael Love 43k • written 3.2 years ago by yampolsk • 0

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1.3k

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deseq2 Phyloseq Nested

updated 4.9 years ago by Michael Love 43k • written 4.9 years ago by mpuli011 • 0

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1.0k

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deseq2 Paired Nested

updated 5.1 years ago by Michael Love 43k • written 5.1 years ago by julia.chariker ▴ 10

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1.3k

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deseq2 nested de

updated 5.2 years ago by Michael Love 43k • written 5.2 years ago by gaio.transposon • 0

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1.5k

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edgeR nested glm glmQLFit

updated 5.8 years ago by Aaron Lun ★ 28k • written 5.8 years ago by jcalis ▴ 10

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2.7k

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edger nested design matrix differential expression

updated 10.0 years ago by Aaron Lun ★ 28k • written 10.0 years ago by Mauve • 0

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2.1k

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edger nested estimatedispersions

10.0 years ago Mauve • 0

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Answer: SingleR with multiple single cell references by Aaron Lun ★ 28k

> Is it necessary to piece together the individual steps manually (e.g. aggregateReference, trainSingleR, classifySingleR, combineRecompute…

Answer: Automatically install dependencies by ATpoint ★ 4.7k

The BiocManager, which is sort of an extended wrapper around `install.packages`, installs all R dependencies. If you see errors then this i…

Answer: To count or not to count multi-overlapping reads? by Gordon Smyth 52k

> How does it handle reads that map to a gene that is located in a region that also has another gene but on the alternate strand? Overlapp…

Comment: Weird p-values using DESeq2? by ATpoint ★ 4.7k

This does not look like normalized counts but raw counts. Consider using `counts(dds, normalized = TRUE)` or the output of `normTransform()…

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A: Fraction count for multi mapping reads; how to generate input file for Deseq2 fo

Comment: Weird p-values using DESeq2?

Comment: Overcoming confounding in batch effect correction

Answer: Store Matrix in DataFrame Cell

Answer: enrichGOgradient color change

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