Bioconductor RUVseq

Showing : RUVseq • reset

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230

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RUVSeq sva

13 days ago nhaus ▴ 30

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272

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RUVSeq limma DifferentialExpression

11 weeks ago • updated 10 weeks ago Shaimaa Gamal • 0

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333

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RUVSeq limma DifferentialExpression

updated 11 weeks ago by Gordon Smyth 50k • written 11 weeks ago by Shaimaa Gamal • 0

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351

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RUVSeq limma DifferentialExpression edgeR Normalization

updated 11 weeks ago by James W. MacDonald 65k • written 11 weeks ago by Shaimaa Gamal • 0

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442

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RUVSeq

3 months ago ctlong • 0

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659

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RUVSeq

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

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1.2k

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RUVSeq sva limma

updated 7 days ago by Gordon Smyth 50k • written 7 months ago by Jonathan ▴ 10

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817

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BatchEffect RUVSeq RNASeq DESeq2

updated 7 months ago by ATpoint ★ 4.0k • written 7 months ago by Shashank • 0

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619

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RUVSeq DESeq2

8 months ago anne.hoffrichter • 0

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7.3k

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RUVg ruvseq rnaseq

updated 4 weeks ago by Shaimaa Gamal • 0 • written 8.9 years ago by Pauly Lin ▴ 150

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1.7k

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ruvseq

written 8.4 years ago by tonja.r ▴ 80

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…

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