terraTCGAdata

DOI: 10.18129/B9.bioc.terraTCGAdata    

OpenAccess TCGA Data on Terra as MultiAssayExperiment

Bioconductor version: Release (3.16)

Leverage the existing open access TCGA data on Terra with well-established Bioconductor infrastructure. Make use of the Terra data model without learning its complexities. With a few functions, you can copy / download and generate a MultiAssayExperiment from the TCGA example workspaces provided by Terra.

Author: Marcel Ramos [aut, cre]

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

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

Installation

To install this package, start R (version "4.2") and enter:

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

BiocManager::install("terraTCGAdata")

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("terraTCGAdata")

 

HTML R Script Obtain Terra TCGA data as MultiAssayExperiment
PDF   Reference Manual
Text   NEWS

Details

biocViews DataImport, Infrastructure, Software
Version 1.2.0
In Bioconductor since BioC 3.15 (R-4.2) (0.5 years)
License Artistic-2.0
Depends R (>= 4.2.0), AnVIL, MultiAssayExperiment
Imports BiocFileCache, dplyr, GenomicRanges, methods, RaggedExperiment, readr, S4Vectors, stats, tidyr, TCGAutils, utils
LinkingTo
Suggests knitr, rmarkdown, BiocStyle, withr, testthat (>= 3.0.0)
SystemRequirements
Enhances
URL https://github.com/waldronlab/terraTCGAdata
BugReports https://github.com/waldronlab/terraTCGAdata/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package terraTCGAdata_1.2.0.tar.gz
Windows Binary terraTCGAdata_1.2.0.zip (64-bit only)
macOS Binary (x86_64) terraTCGAdata_1.2.0.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/terraTCGAdata
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/terraTCGAdata
Package Short Url https://bioconductor.org/packages/terraTCGAdata/
Package Downloads Report Download Stats

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