Bioconductor Genomicdatacommons

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manifest GDCdownload GenomicDataCommons

20 months ago xiaofeiwang198266 • 0

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TCGA GenomicDataCommons GDC

written 21 months ago by António Miguel de Jesus Domingues ▴ 510

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TCGA GenomicDataCommons

updated 3.3 years ago by Robert Castelo ★ 3.4k • written 3.3 years ago by Hashirama ▴ 10

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GenomicDataCommons

3.6 years ago xiaofeiwang18266 ▴ 50

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TCGA GenomicDataCommons

4.0 years ago Ezgi ▴ 60

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GenomicDataCommons R

updated 3.6 years ago by xiaofeiwang18266 ▴ 50 • written 5.1 years ago by gv ▴ 40

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TCGAutils TCGAbiolinks GenomicDataCommons

updated 5.7 years ago by Marcel Ramos 700 • written 5.7 years ago by Dario Strbenac ★ 1.6k

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genomicdatacommons tcga gdc rest http

updated 6.2 years ago by Sean Davis 21k • written 6.2 years ago by mk ▴ 20

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Comment: Annotation package for Manduca sexta by GA ▴ 10

Thank you!

Comment: Improving performance of edgeR and limma while adjusting for multiple confounder by ATpoint ★ 4.8k

If 2 minutes is inacceptable to you then you can still fall back to limma-trend which should give a dramatic speedup and finish in seconds.…

Comment: getBM from biomaRt inconsistencies found with .gtf files across multiple species by Mike Smith ★ 6.6k

Great, thanks for the update from Ensembl. So the most relevant part of 'Location: Scaffold HG1277_PATCH: 137,021-141,806 forward strand' …

Answer: Improving performance of edgeR and limma while adjusting for multiple confounder by Gordon Smyth 52k

We recommend that you use voomLmFit() instead of voom+lmFit. We are pretty proud of the speed of glmQLFit and voom, and we hadn't expected…

Answer: Merging EPICV1 and V2 betas by James W. MacDonald 68k

It appears that [SeSAMe][1] has functions meant to do that sort of thing. [1]: https://bioconductor.org/packages/release/bioc/vignet…

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Looking for equivalent EPIC chip v1 vs. v2 annotation variables

Properly constructing a hypergeometric test

A: Is logFC a log2 fold change or some other base in scran::findMarkers

Comment: Error in retrieving clinical data

What is the cheapest day to fly on American Airlines? {Ask_Expert}

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