Bioconductor GenomicDataCommons

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TCGAutils TCGAbiolinks GenomicDataCommons

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GenomicDataCommons R

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TCGA GenomicDataCommons

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manifest GDCdownload GenomicDataCommons

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GenomicDataCommons

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TCGA GenomicDataCommons

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genomicdatacommons tcga gdc rest http

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TCGA GenomicDataCommons GDC

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8 results • Page 1 of 1

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Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 42k

To me, 100 and 200 kb both look fine. You want to have blocks smaller than segmentation regions.

Comment: ChAMP installation issue by e1271094 • 0

I discovered that the dataset data("probe.features.epicv1") is unavailable. Instead, the dataset data("probe.features.epic") is accessible.…

Comment: ChAMP installation issue by e1271094 • 0

I apologise for any inconvenience. I have successfully installed the ChAMP package. However, I am now encountering a new error: myLoad <- …

Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0

Yes, blockLength=200000, and seg=seg. I am concerned about the inter-feature distance of features. I generated this plot for various bloc…

Answer: Can I trust the differential expression analysis when the two groups overlap on by Michael Love 42k

Can you use `vst` instead of `rlog` and increase to 1000 or 2000 genes? I'm wondering if there's a way to characterize these 7 samples. …

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A: Diffbind results - non uniform width

A: Different logFC (log2foldchange) values for genes from limma-voom and other too

Answer: Error EPICv2 ChAMP

Comment: Store output of matchPWM()

Answer: Store output of matchPWM()

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Scholar to mat149 ▴ 70