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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 (3.19)

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 (version "4.4") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("RTCGA.CNV")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

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

browseVignettes("RTCGA.CNV")
Using RTCGA to download CNV data as included in RTCGA.CNV HTML R Script
Using RTCGA to estimate ratio of MDM2 duplications HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews AnnotationData, ExperimentData
Version 1.31.0
License GPL-2
Depends R (>= 3.3.0), RTCGA
Imports
System Requirements
URL
Bug Reports https://github.com/RTCGA/RTCGA/issues
See More
Suggests knitr, rmarkdown
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me RTCGA
Links To Me
Build Report Build Report

Package Archives

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

Source Package RTCGA.CNV_1.31.0.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
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 https://bioconductor.org/packages/RTCGA.CNV/
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