Bioconductor Formula

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rnaseq deseq2 formula Limma

9.0 years ago • updated 8.9 years ago AurelieMLB ▴ 50

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deseq2 design formula batch effect

updated 4.2 years ago by swbarnes2 ★ 1.3k • written 4.2 years ago by l.rijnberk • 0

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deseq2 formula controls design

updated 4.7 years ago by Michael Love 41k • written 4.7 years ago by taveluz • 0

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limma dose-response linear model model formula

updated 6.4 years ago by James W. MacDonald 65k • written 6.4 years ago by biominer ▴ 10

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DESeq2 twins design formula RNA-seq

6.5 years ago Simone • 0

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dexseq linear model formula

updated 8.5 years ago by Alejandro Reyes ★ 1.9k • written 8.5 years ago by Cornwell, Adam ▴ 110

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variance formula expression

updated 5.3 years ago by mikhael.manurung ▴ 270 • written 5.3 years ago by rina ▴ 30

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DESeq2 design formula matrix

updated 5.9 years ago by Michael Love 41k • written 5.9 years ago by t.kuilman ▴ 170

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limma design RNA-seq formula twins

updated 6.5 years ago by Aaron Lun ★ 28k • written 6.5 years ago by Simone • 0

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747

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deseq2 design formula

updated 3.5 years ago by Michael Love 41k • written 3.5 years ago by Bine ▴ 40

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BatchEffect batch RNASeqR formula DESeq2

updated 20 months ago by Michael Love 41k • written 20 months ago by estafana.t98 • 0

11 results • Page 1 of 1

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Comment: Reproducibility issue with scran together with lapply and BiocParallel by ATpoint ★ 4.0k

Thanks Aaron for the response. RNGseed (for me) has no effect. I actually stumbled over this in one of my analysis where I have a constant …

Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by winwater0928 • 0

Thank you for your comment! 1)"Your contrast is comparing LGR5 to Homeostasis." means (Lgr5)/(Homeostasis). Is it right? Then, I think if…

Answer: Reproducibility issue with scran together with lapply and BiocParallel by Aaron Lun ★ 28k

IIRC **BiocParallel** switches to a different RNG when inside its own functions like `bplapply` - specifically L'Ecuyer-CMRG, as opposed to…

Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k

This looks terrible for RNASeq data, because it's not RNASeq data. It's a matrix of pretty random numbers, which you know because you poste…

Comment: DESeq2 output used for PCA plot on R studio by Aaliya • 0

I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…

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C: null model and DEXSeqDataSet object in DEXSEQ

A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?

A: How to explain how DESeq2 works to someone with zero bioinformatics background?

Answer: Interpret plot from DiffBind

Answer: How to retrieve gene ontology GO class from gene list?

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Supporter to JKim • 0