RaggedExperiment

DOI: 10.18129/B9.bioc.RaggedExperiment    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see RaggedExperiment.

Representation of Sparse Experiments and Assays Across Samples

Bioconductor version: 3.8

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.

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

Maintainer: Martin Morgan <martin.morgan at roswellpark.org>

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("RaggedExperiment")

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("RaggedExperiment")

 

HTML	R Script	RaggedExperiment
PDF		Reference Manual
Text		NEWS

Details

biocViews	DataRepresentation, Infrastructure, Software
Version	1.6.0
In Bioconductor since	BioC 3.5 (R-3.4) (2 years)
License	Artistic-2.0
Depends	R (>= 3.5.0), GenomicRanges
Imports	BiocGenerics, GenomeInfoDb, IRanges, methods, S4Vectors, stats, SummarizedExperiment
LinkingTo
Suggests	BiocStyle, knitr, testthat, MultiAssayExperiment
SystemRequirements
Enhances
URL
BugReports	https://github.com/Bioconductor/RaggedExperiment/issues
Depends On Me	TxRegInfra
Imports Me	omicsPrint, RTCGAToolbox, TCGAutils
Suggests Me	MultiAssayExperiment, MultiDataSet
Links To Me
Build Report

Package Archives

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

Source Package	RaggedExperiment_1.6.0.tar.gz
Windows Binary	RaggedExperiment_1.6.0.zip
Mac OS X 10.11 (El Capitan)	RaggedExperiment_1.6.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/RaggedExperiment
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/RaggedExperiment
Package Short Url	http://bioconductor.org/packages/RaggedExperiment/
Package Downloads Report	Download Stats