DOI: 10.18129/B9.bioc.RaggedExperiment  

Representation of Sparse Experiments and Assays Across Samples

Bioconductor version: Release (3.17)

This package provides a flexible representation of copy number, mutation, and other data that fit into the ragged array schema for genomic location data. The basic representation of such data provides a rectangular flat table interface to the user with range information in the rows and samples/specimen in the columns. The RaggedExperiment class derives from a GRangesList representation and provides a semblance of a rectangular dataset.

Author: Martin Morgan [aut], Marcel Ramos [aut, cre]

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

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


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biocViews DataRepresentation, Infrastructure, Software
Version 1.24.2
In Bioconductor since BioC 3.5 (R-3.4) (6.5 years)
License Artistic-2.0
Depends R (>= 4.2.0), GenomicRanges(>= 1.37.17)
Imports BiocGenerics, GenomeInfoDb, IRanges, Matrix, MatrixGenerics, methods, S4Vectors, stats, SummarizedExperiment, utils
Suggests BiocStyle, knitr, rmarkdown, testthat, MultiAssayExperiment
BugReports https://github.com/Bioconductor/RaggedExperiment/issues
Depends On Me CNVRanger, compartmap
Imports Me cBioPortalData, omicsPrint, RTCGAToolbox, TCGAutils, terraTCGAdata
Suggests Me curatedTCGAData, maftools, MultiAssayExperiment, MultiDataSet, SingleCellMultiModal, TENxIO
Links To Me
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Follow Installation instructions to use this package in your R session.

Source Package RaggedExperiment_1.24.2.tar.gz
Windows Binary RaggedExperiment_1.24.2.zip (64-bit only)
macOS Binary (x86_64) RaggedExperiment_1.24.2.tgz
macOS Binary (arm64) RaggedExperiment_1.24.2.tgz
Source Repository git clone https://git.bioconductor.org/packages/RaggedExperiment
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/RaggedExperiment
Bioc Package Browser https://code.bioconductor.org/browse/RaggedExperiment/
Package Short Url https://bioconductor.org/packages/RaggedExperiment/
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Old Source Packages for BioC 3.17 Source Archive

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