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terraTCGAdata

OpenAccess TCGA Data on Terra as MultiAssayExperiment

Bioconductor version: 3.24 · Package version: 1.17.1

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.

Installation

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

BiocManager::install("terraTCGAdata")

Details

MaintainerMarcel Ramos <marcel.ramos@sph.cuny.edu>
AuthorMarcel Ramos [aut, cre] (ORCID: <https://orcid.org/0000-0002-3242-0582>), NHGRI [fnd] (GrantNo.: U24HG010263)
LicenseArtistic-2.0
URLhttps://github.com/waldronlab/terraTCGAdata
Bug Reportshttps://github.com/waldronlab/terraTCGAdata/issues
Downloads rank334
Source branchdevel
biocViewsDataImport, Infrastructure, Software

Documentation

Download

Follow the installation instructions to use this package in your R session.

Source packageterraTCGAdata_1.17.1.tar.gz
Windows binary (x86_64)terraTCGAdata_1.17.1.zip
macOS binary (arm64)terraTCGAdata_1.17.1.tgz
macOS binary (x86_64)terraTCGAdata_1.17.1.tgz
Dependencies

Depends: AnVILGCP, MultiAssayExperiment

Imports: AnVIL, BiocFileCache, dplyr, GenomicRanges, methods, RaggedExperiment, readr, S4Vectors, stats, tidyr, TCGAutils, utils

Suggests: AnVILBase, GCPtools, knitr, rmarkdown, BiocStyle, withr, testthat (>= 3.0.0)