Bioconductor MakeContrasts

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designmatrices differentialexpression makeContrasts limma model.matrix

3.0 years ago mohammedtoufiq91 ▴ 10

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makeContrasts edgeR

updated 3.6 years ago by Steve Lianoglou ★ 13k • written 3.7 years ago by Lina ▴ 10

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microarray dge matrix makecontrasts limma

updated 4.7 years ago by Gordon Smyth 52k • written 4.7 years ago by June. ▴ 10

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diffrential expression limma makeContrasts

updated 6.8 years ago by Gordon Smyth 52k • written 6.8 years ago by S.Bamopoulos ▴ 10

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rnaseq edgeR makecontrasts interactions

updated 6.8 years ago by Aaron Lun ★ 28k • written 6.8 years ago by David R ▴ 90

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limma model.matrix makecontrasts

updated 6.8 years ago by Gordon Smyth 52k • written 6.8 years ago by enricoferrero ▴ 680

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897

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deseq2 makecontrasts

updated 7.3 years ago by Michael Love 43k • written 7.3 years ago by samuel.quentin • 0

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contrast matrix toptable makecontrasts differential gene expression

7.5 years ago stinehedensted • 0

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limma contrast missing data lmfit makecontrasts

updated 7.6 years ago by Gordon Smyth 52k • written 7.6 years ago by wewolski ▴ 10

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limma toptable makecontrasts contrast matrix

updated 7.8 years ago by Ryan C. Thompson ★ 7.9k • written 7.8 years ago by hoe • 0

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rnaseq edger makecontrasts

updated 7.8 years ago by Aaron Lun ★ 28k • written 7.8 years ago by wangzhang1988 • 0

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limma model.matrix makecontrasts

8.1 years ago TFony ▴ 10

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limma design matrix makecontrasts multiple comparisons

8.2 years ago • updated 8.1 years ago annabelle.congras ▴ 10

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edger makecontrasts timecourse

updated 8.4 years ago by Ryan C. Thompson ★ 7.9k • written 8.4 years ago by aec ▴ 90

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edger makecontrasts

8.9 years ago xiaoaozqd • 0

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limma microarray interaction model multiple factor design makeContrasts

updated 9.1 years ago by Aaron Lun ★ 28k • written 9.1 years ago by svlachavas ▴ 840

16 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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