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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 (3.18)

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 "4.3") 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 1.29.0
License GPL-2
Depends R (>= 3.3.0), RTCGA
Imports
Linking To
Suggests knitr, rmarkdown
System Requirements
Enhances
URL
Bug Reports https://github.com/RTCGA/RTCGA/issues
See More
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_1.29.0.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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