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cdf GEOquery puma cdf GEOquery puma

13.5 years ago Manca Marco PATH ▴ 340

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puma puma

updated 16.0 years ago by Richard Pearson ▴ 390 • written 16.0 years ago by Paul Geeleher ★ 1.3k

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miRNA GO limma puma miRNA GO limma puma

updated 16.0 years ago by Deepayan Sarkar ▴ 220 • written 16.0 years ago by Paul Geeleher ★ 1.3k

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Microarray Annotation Normalization vsn bgx puma Microarray Annotation Normalization vsn

updated 13.9 years ago by Benilton Carvalho ★ 4.3k • written 13.9 years ago by Rainer Tischler ▴ 60

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puma puma

updated 16.2 years ago by Richard Pearson ▴ 390 • written 16.2 years ago by Paul Geeleher ★ 1.3k

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puma puma

13.5 years ago Alberto Goldoni ▴ 420

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Microarray Normalization limma marray puma Microarray Normalization limma marray puma

updated 3.2 years ago by Gordon Smyth 50k • written 11.0 years ago by Ellen Sebastian ▴ 20

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PROcess mmgmos puma PROcess mmgmos puma

updated 10.2 years ago by Antti Honkela ▴ 50 • written 10.2 years ago by Solanki, Anisha ▴ 60

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Microarray impute PROcess convert mmgmos puma tigre trigger Microarray impute PROcess

updated 10.2 years ago by Solanki, Anisha ▴ 60 • written 10.2 years ago by Antti Honkela ▴ 50

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puma puma

16.1 years ago Paul Geeleher ★ 1.3k

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PROcess mmgmos puma PROcess mmgmos puma

10.2 years ago Solanki, Anisha ▴ 60

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puma DEXSeq puma DEXSeq

11.1 years ago Natasha ▴ 440

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impute PROcess mmgmos puma impute PROcess mmgmos puma

10.2 years ago Solanki, Anisha ▴ 60

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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…

Votes

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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