Bioconductor Delayedarray

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DESeq2 SummarizedExperiment SparseArray Install DelayedArray

updated 5 months ago by Michael Love 41k • written 5 months ago by eg226 • 0

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HDF5Array DelayedArray

updated 6 months ago by Hervé Pagès 16k • written 2.6 years ago by Koki ▴ 10

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763

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DelayedArray

updated 7 months ago by Hervé Pagès 16k • written 8 months ago by Koki ▴ 10

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DelayedArray TileDBArray

7 months ago sandmann.t ▴ 70

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delayedarray rowsum

written 6.6 years ago by maltethodberg ▴ 170

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SummarizedExperiment S4Arrays DelayedArray

updated 10 months ago by Hervé Pagès 16k • written 11 months ago by Michael Steinbaugh ▴ 90

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DelayedArray S4Arrays

updated 11 months ago by Hervé Pagès 16k • written 11 months ago by xiuwen.zheng • 0

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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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Supporter to JKim • 0