Bioconductor Fold Change

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R deseq2 edger differential gene expression fold change

updated 2.6 years ago by ATpoint ★ 4.5k • written 6.4 years ago by Beginner ▴ 60

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diffBind Fold Change

updated 3.6 years ago by Joe Nicholas • 0 • written 5.9 years ago by joseluis.ruiz • 0

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1.5k

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edger differential expression genes fold change

updated 5.4 years ago by Aaron Lun ★ 28k • written 5.4 years ago by ilovesuperheroes1993 • 0

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mfuzz fold change log2 STANDARDISATION

6.4 years ago prakashpandey1111 • 0

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ballgown stattest fold change

updated 6.7 years ago by James W. MacDonald 67k • written 6.7 years ago by Arindam ▴ 80

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logfc limma fold change

updated 8.3 years ago by Gordon Smyth 52k • written 8.3 years ago by Claudia ▴ 10

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edgeR DE analysis fold change cpm

updated 8.3 years ago by Ryan C. Thompson ★ 7.9k • written 8.3 years ago by Sara ▴ 20

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Comment: What type of counts data to import for performing Isoform analysis in edgeR by ATpoint ★ 4.5k

Probably nf-core did not run with bootstrap/gibbs replicates. Check the code. See salmon docs on how to turn that on.

Comment: What type of counts data to import for performing Isoform analysis in edgeR by mohammedtoufiq91 ▴ 10

@atpoint Thank you. I did wanted to try using the `quant.sf` files from the `salmon` run by referring edgeR user guide example `4.6 Differe…

Comment: athPkgBuilder data source :missing probesets by bobihanigujjar • 0

In this article, we'll explore the demand for unbranded BJJ Gis and the benefits of choosing unbranded Gis for customization. [does anyone …

Comment: Crossover design with limma by SamGG ▴ 360

IMHO, here are the missing annotations treatmentdrug_orderDrugPlac - treatmentplacebo_orderDrugPlac, # effect of drug for the Drug…

Answer: What type of counts data to import for performing Isoform analysis in edgeR by ATpoint ★ 4.5k

You don't need any of these files. You need the `catchSalmon` function which reads `quant.sf` and the inferential (Bootstrap/Gibbs) replica…

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Comment: ANOVA like approach of edgeR

Comment: Crossover design with limma

Answer: DESeq2 normalization vs VST vs rlog

Comment: makeContrastsDream for Interaction

Answer: Limma- Print-tip loess normalisation-printer layout information does not match M

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