Bioconductor Cancerdata

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omics cancerdata Pathways

15 months ago omicsresearch • 0

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TCGAbiolinks RNASeq CancerData

updated 2.7 years ago by Tiago C. Silva ▴ 270 • written 2.8 years ago by JAcky • 0

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GEOquery CancerData limma RCy3 CancerInSilico

updated 3.4 years ago by Steve Lianoglou ★ 13k • written 3.4 years ago by Caitlin ▴ 50

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Microarray GEOquery cancerdata MicroarrayData

updated 3.6 years ago by James W. MacDonald 68k • written 3.6 years ago by Caitlin ▴ 50

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CancerData StructuralGenomics VirusStability pH-dependence

3.7 years ago jim.warwicker • 0

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Comment: Model performance for spline modelling of RNA-seq timecourses in edgeR by skiaphrene ▴ 10

Dear Gordon, Thank you very much for your prompt reply. I agree with the limma/edgeR perspective of including all potentially explanatory…

Comment: how to use `arrayWeightsQuick()`? by Gordon Smyth 52k

What sort of object is `expression`? Does it contain any missing values?

Answer: Deleted:No significant MVPs with a BH adjusted P-value below 0.05 by shocked.tick.zyet • 0

Dealing with those adjusted p-values in ChAMP can feel like a frustrating game of [Uno Online](https://unoonlinefree.com) , especially when…

Comment: DESeq2 lfcShrink drastic shrinkage by Nick • 0

Did you ever figure out the cause of this? I am seeing very similar results and wondering if you have advice on how you may have resolved t…

Comment: [ChIP-seq] DESeq2 on counts matrix from union set of called peaks by Luca • 0

Thanks for your time on this, I have also never seen anything quite like this before neither. The only confounding variable I received in t…

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Modelling gene program dynamics across time with {lemur}

A: DESeq2 one group vs multiple groups comparison in presence of batch effect

Comment: BiocParallel_1.40.1.tar.gz not available

Limma outputs different results for same sample?

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