RTCGA.CNV

DOI: 10.18129/B9.bioc.RTCGA.CNV    

This is the development version of RTCGA.CNV; for the stable release version, see RTCGA.CNV.

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

Bioconductor version: Development (3.8)

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>

Citation (from within R, enter citation("RTCGA.CNV")):

Installation

To install this package, start R and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("RTCGA.CNV", version = "devel")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("RTCGA.CNV")

 

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 1.9.2
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
Links To Me
Build Report  

Package Archives

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

Source Package RTCGA.CNV_1.9.2.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan)
Source Repository git clone https://git.bioconductor.org/packages/RTCGA.CNV
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/RTCGA.CNV
Package Short Url http://bioconductor.org/packages/RTCGA.CNV/
Package Downloads Report Download Stats

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