RTCGA.CNV

This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see RTCGA.CNV.

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

Bioconductor version: 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年11月01日 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")
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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews AnnotationData, ExperimentData

Version 1.32.0

License GPL-2

Depends R (>= 3.3.0), RTCGA

Imports

System Requirements

URL

Bug Reports https://github.com/RTCGA/RTCGA/issues

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_1.32.0.tar.gz

Windows Binary (x86_64)

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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