Bioconductor RTCGAToolbox

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firehose R RTCGAToolbox getFirehoseData

updated 5.2 years ago by Marcel Ramos 660 • written 5.2 years ago by lawarde.ankita1 ▴ 30

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installation permission denied RTCGAToolbox TCGAbiolinks

3.1 years ago julia.tutzauer • 0

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RTCGAToolbox

6.2 years ago federico.comoglio ▴ 100

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RTCGAToolbox

updated 7.6 years ago by samur • 0 • written 7.6 years ago by carlos.ruiz • 0

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Comment: SummarizedExperiment is now warning on attach about `read_block` namespace confl by Hervé Pagès 16k

Available since last Friday. See https://bioconductor.org/packages/3.17/DelayedArray

Comment: Diffbind "No genome detected" by James W. MacDonald 63k

The error you see comes from an internal function called `pv.genome` that inspects the header of your BAM file and tries to infer the genom…

Comment: Diffbind "No genome detected" by kyliecode • 0

Hi James, Thanks for your reply! For the blacklist, I just used the one provided by DiffBind, which is "DBA_BLACKLIST_MM10". For the grey…

Answer: DESeq2 on multilevel design variable by ATpoint ★ 2.9k

You can make your life simply and use a contrast for each, for example: ```r library(DESeq2) dds <- makeExampleDESeqDataSet() diagnosis <…

Answer: Diffbind "No genome detected" by James W. MacDonald 63k

You can specify the greylist in the same manner as the blacklist, which should fix your problem.

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Comment: Sudden error with KEGG analysis using gometh

Answer: Although I successfully installed the package "simpleaffy'' , I cannot library i

Answer: Annotation with org.Hs.eg.db Genome Build 38

Comment: Adjusting for baseline when having longitudinal data, mixed model and no treat

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Teacher to James W. MacDonald 63k