RTCGA.CNV

DOI: 10.18129/B9.bioc.RTCGA.CNV    

CNV (Copy-number variation) datasets from The Cancer Genome Atlas Project

Bioconductor version: Release (3.6)

Package provides CNV (based on Merge snp) datasets from The Cancer Genome Atlas Project for all cohorts types from http://gdac.broadinstitute.org/. Data format is explained here https://wiki.nci.nih.gov/display/TCGA/Retrieving +Data+Using+the+Data+Matrix. Data from 2015-11-01 snapshot.

Author: Przemyslaw Biecek <przemyslaw.biecek at gmail.com>

Maintainer: Marcin Kosinski <m.p.kosinski at gmail.com>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("RTCGA.CNV")

Documentation

HTML	R Script	Using RTCGA to download CNV data as included in RTCGA.CNV
HTML	R Script	Using RTCGA to estimate ratio of MDM2 duplications
PDF		Reference Manual

Details

biocViews	AnnotationData, ExperimentData
Version	1.6.0
License	GPL-2
Depends	R (>= 3.3.0), RTCGA
Imports
LinkingTo
Suggests	knitr
SystemRequirements
Enhances
URL
BugReports	https://github.com/RTCGA/RTCGA/issues
Depends On Me
Imports Me
Suggests Me	RTCGA
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	RTCGA.CNV_1.6.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan)
Source Repository	git clone https://git.bioconductor.org/packages/RTCGA.CNV
Package Short Url	http://bioconductor.org/packages/RTCGA.CNV/
Package Downloads Report	Download Stats