Bioconductor Confounders

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scRNA-seq MAST confounders

updated 5.2 years ago by Andrew_McDavid ▴ 280 • written 5.2 years ago by ramonmassoni ▴ 10

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limma limma-voom limma design matrix confounders

updated 6.8 years ago by Aaron Lun ★ 28k • written 6.8 years ago by S.Bamopoulos ▴ 10

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deseq2 confounders nanostring rnaseq differential gene expression

updated 7.0 years ago by Michael Love 43k • written 7.0 years ago by kim.malek88 • 0

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2.5k

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ruvseq deseq2 model.matrix confounders

updated 7.7 years ago by davide risso ▴ 980 • written 7.7 years ago by heikki.sarin ▴ 10

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deseq2 confounders design matrix rnaseq

7.9 years ago lina.faller ▴ 10

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2.3k

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minfi bumphunter confounders

updated 8.0 years ago by James W. MacDonald 68k • written 8.0 years ago by gft219 • 0

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2.1k

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edgeR paired samples confounders model.matrix

updated 8.8 years ago by Ryan C. Thompson ★ 7.9k • written 8.8 years ago by manasishah86 ▴ 30

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5.1k

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deseq2 rnaseq_analysis variancestabilizingtransformation confounders

updated 8.9 years ago by Michael Love 43k • written 8.9 years ago by ompandey ▴ 10

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5.3k

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Deseq2 dds confounders

updated 9.3 years ago by Michael Love 43k • written 9.3 years ago by colaneri ▴ 30

9 results • Page 1 of 1

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Comment: DESeq2 - human data, weird results, troubleshooting by bd2000 ▴ 30

I didn't include all of my code the post would be too long. Here's a link to my GitHub if anyone would like to see the full code: [Full Rst…

Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin by James W. MacDonald 68k

The simple answer is that the within-group variability is much higher for the first gene as compared to the second. The Wald statistic is j…

Comment: DESeq: Gene is not flagged as differentially expressed despite count data showin by ATpoint ★ 4.8k

> since there doesn't seem to be as much count variability, No? Your CD45 samples range on normalized scale from 2 to 3255. That's 3 orde…

Comment: Ensembl site unresponsive via biomaRt by darylruiz6545 • 0

Thank you so much for sharing the link.

Comment: compute_fasta_digest does not match Salmon index hash by Alex • 0

I use the `fastaDigest` tool from [COMBINE-lab/fastaDigest](https://github.com/COMBINE-lab/FastaDigest/), which has the function `compute_f…

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Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin

Two EPIC Methylation Array Analysis Questions

How to get DMR for Infinium methylation EPIC v2

A: GEOquery Fails to Download Series Matrix File

Comment: Gene IDs conversion between Ensembl and NCBI nomenclature for non-model species

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