Bioconductor GenomicDataCommons

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manifest GDCdownload GenomicDataCommons

3 months ago xiaofeiwang198266 • 0

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TCGA GenomicDataCommons GDC

written 5 months ago by António Miguel de Jesus Domingues ▴ 490

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TCGA GenomicDataCommons

updated 24 months ago by Robert Castelo ★ 3.0k • written 24 months ago by Hashirama ▴ 10

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GenomicDataCommons

2.3 years ago xiaofeiwang18266 ▴ 50

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TCGA GenomicDataCommons

2.7 years ago Ezgi ▴ 60

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GenomicDataCommons R

updated 2.3 years ago by xiaofeiwang18266 ▴ 50 • written 3.8 years ago by gv ▴ 40

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TCGAutils TCGAbiolinks GenomicDataCommons

updated 4.4 years ago by Marcel Ramos 680 • written 4.4 years ago by Dario Strbenac ★ 1.5k

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genomicdatacommons tcga gdc rest http

updated 4.9 years ago by Sean Davis 21k • written 4.9 years ago by mk ▴ 20

8 results • Page 1 of 1

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Comment: Problem making orgdb package for bacteria (Pseudomonas) using annotation hub and by Aastha Kapoor • 0

After several attempts the code has worked. I connected to a faster internet connection. set the timeout (1000000) and run the command. I …

Comment: DESeq2 estimateSizeFactors iterate takes too long by Karthik • 0

Hello, I agree with you, and we are in process of working with collaborators, but I wanted to get a general opinion on the data and get a …

Comment: It's possible to use clusterProfiler without an annotationDBI package by Guido Hooiveld ★ 3.8k

Code to show it works: > library(clusterProfiler) > > ## use provided 10 IDs, plus as last one add ID that has a GO annotati…

Comment: It's possible to use clusterProfiler without an annotationDBI package by Guido Hooiveld ★ 3.8k

You are almost there... Yet - pay attention to the error message (`--> No gene can be mapped.... --> Expected input gene ID: GO:0055080, .…

Comment: Problem loading HDF5Array in R 4.3.2 by Sarah • 0

Thanks for the reply! I tried this and it is crashing at `h5createFile("test.h5")` even after reinstalling **Rhdf5lib** and **rhdf5** It …

Votes

Answer: Limma/DESeq2 for unbalanced nested design (paired samples)

Result from GSEA for non-model organism not as expected

Comment: DESeq2 estimateSizeFactors iterate takes too long

Answer: DESeq2 estimateSizeFactors iterate takes too long

Comment: biomaRtl returns multiple GO terms when filtering on a single GO term in ensembl

Awards • All

Scholar to Mike Smith ★ 6.2k

Scholar to Hervé Pagès 16k