Bioconductor CancerData

Showing : CancerData • reset

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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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Answer: CluserProfiler message "No gene can be mapped" by James W. MacDonald 68k

Your gene IDs are things like this: `Mpyr-NLJ1B.v3.hap1.scaffold1.g290550`, and the genes in your term2gene table are things like this: `Mp…

Answer: RNA-seq input to GRaNIE by James W. MacDonald 68k

This is [covered in the vignette.][1] [1]: https://bioconductor.org/packages/release/bioc/vignettes/GRaNIE/inst/doc/GRaNIE_packageDe…

Answer: Help using reduceSimMatrix with a custom annotation by sergisayolspuig ▴ 80

Hi there, `reduceSimMatrix()` expects a "GOALL" keytype in the OrgDb object when called with `children=TRUE` (which is the default for thi…

Answer: Analyzing TnSeq data with DESeq2 by cold.wolverine.arku • 0

That's a great use case of DESeq2! Even though it's not specifically tailored for TnSeq data, your approach to normalize and run explorator…

Comment: RNA Seq using Lrt by Rob • 0

So if I have understood what you have said : If i want to see if Day (time) has an effect / is being tested - then the reduced model should…

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A: Unbalanced experiment with multiple samples from each patient.

A: Understanding contrasts limma

Answer: ROAST for small sets

A: conceptual question about FDR, FDR adjusted p-value and q-value

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