cBioPortalData

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see cBioPortalData.

Exposes and makes available data from the cBioPortal web resources


Bioconductor version: 3.13

The cBioPortalData package takes compressed resources from repositories such as cBioPortal and assembles a MultiAssayExperiment object with Bioconductor classes.

Author: Levi Waldron [aut], Marcel Ramos [aut, cre]

Maintainer: Marcel Ramos <marcel.ramos at roswellpark.org>

Citation (from within R, enter citation("cBioPortalData")):

Installation

To install this package, start R (version "4.1") and enter:


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

BiocManager::install("cBioPortalData")

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("cBioPortalData")
cBioPortal Data Build Errors HTML R Script
cBioPortal Quick-start Guide HTML R Script
cBioPortal User Guide HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews Infrastructure, Software, ThirdPartyClient
Version 2.4.10
In Bioconductor since BioC 3.11 (R-4.0) (4 years)
License AGPL-3
Depends R (>= 4.0.0), AnVIL, MultiAssayExperiment
Imports BiocFileCache(>= 1.5.3), digest, dplyr, GenomeInfoDb, GenomicRanges, httr, IRanges, methods, readr, RaggedExperiment, RTCGAToolbox(>= 2.19.7), S4Vectors, SummarizedExperiment, stats, tibble, tidyr, TCGAutils(>= 1.9.4), utils
System Requirements
URL
Bug Reports https://github.com/waldronlab/cBioPortalData/issues
See More
Suggests BiocStyle, knitr, survival, survminer, rmarkdown, testthat
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package cBioPortalData_2.4.10.tar.gz
Windows Binary cBioPortalData_2.4.10.zip
macOS 10.13 (High Sierra) cBioPortalData_2.4.10.tgz
Source Repository git clone https://git.bioconductor.org/packages/cBioPortalData
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/cBioPortalData
Bioc Package Browser https://code.bioconductor.org/browse/cBioPortalData/
Package Short Url https://bioconductor.org/packages/cBioPortalData/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.13 Source Archive