DOI: 10.18129/B9.bioc.cBioPortalData    

This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see cBioPortalData.

Exposes and makes available data from the cBioPortal web resources

Bioconductor version: 3.15

The cBioPortalData R package accesses study datasets from the cBio Cancer Genomics Portal. It accesses the data either from the pre-packaged zip / tar files or from the API interface that was recently implemented by the cBioPortal Data Team. The package can provide data in either tabular format or with MultiAssayExperiment object that uses familiar Bioconductor data representations.

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

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

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


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if (!require("BiocManager", quietly = TRUE))


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HTML R Script cBioPortal Data Build Errors
HTML R Script cBioPortal Quick-start Guide
HTML R Script cBioPortal User Guide
HTML R Script Migrating from cgdsr to cBioPortalData
PDF   Reference Manual
Text   NEWS


biocViews Infrastructure, Software, ThirdPartyClient
Version 2.8.2
In Bioconductor since BioC 3.11 (R-4.0) (2.5 years)
License AGPL-3
Depends R (>= 4.2.0), AnVIL(>= 1.7.1), 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
Suggests BiocStyle, knitr, survival, survminer, rmarkdown, testthat
BugReports https://github.com/waldronlab/cBioPortalData/issues
Depends On Me
Imports Me cbaf, LowMACA
Suggests Me
Links To Me
Build Report  

Package Archives

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Source Package cBioPortalData_2.8.2.tar.gz
Windows Binary cBioPortalData_2.8.2.zip
macOS Binary (x86_64) cBioPortalData_2.8.2.tgz
Source Repository git clone https://git.bioconductor.org/packages/cBioPortalData
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/cBioPortalData
Package Short Url https://bioconductor.org/packages/cBioPortalData/
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