BumpyMatrix

DOI: 10.18129/B9.bioc.BumpyMatrix  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see BumpyMatrix.

Bumpy Matrix of Non-Scalar Objects

Bioconductor version: 3.16

Implements the BumpyMatrix class and several subclasses for holding non-scalar objects in each entry of the matrix. This is akin to a ragged array but the raggedness is in the third dimension, much like a bumpy surface - hence the name. Of particular interest is the BumpyDataFrameMatrix, where each entry is a Bioconductor data frame. This allows us to naturally represent multivariate data in a format that is compatible with two-dimensional containers like the SummarizedExperiment and MultiAssayExperiment objects.

Author: Aaron Lun [aut, cre], Genentech, Inc. [cph]

Maintainer: Aaron Lun <infinite.monkeys.with.keyboards at gmail.com>

Installation

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

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

BiocManager::install("BumpyMatrix")

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("BumpyMatrix")

 

HTML	R Script	The BumpyMatrix class
PDF		Reference Manual
Text		LICENSE

Details

biocViews	DataRepresentation, Infrastructure, Software
Version	1.6.0
In Bioconductor since	BioC 3.13 (R-4.1) (2 years)
License	MIT + file LICENSE
Depends
Imports	utils, methods, Matrix, S4Vectors, IRanges
LinkingTo
Suggests	BiocStyle, knitr, rmarkdown, testthat
SystemRequirements
Enhances
URL	https://bioconductor.org/packages/BumpyMatrix
BugReports	https://github.com/LTLA/BumpyMatrix/issues
Depends On Me
Imports Me	CoreGx, MerfishData, MouseGastrulationData
Suggests Me	ggspavis, SpatialExperiment, STexampleData
Links To Me
Build Report

Package Archives

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

Source Package	BumpyMatrix_1.6.0.tar.gz
Windows Binary	BumpyMatrix_1.6.0.zip
macOS Binary (x86_64)	BumpyMatrix_1.6.0.tgz
macOS Binary (arm64)	BumpyMatrix_1.6.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/BumpyMatrix
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/BumpyMatrix
Bioc Package Browser	https://code.bioconductor.org/browse/BumpyMatrix/
Package Short Url	https://bioconductor.org/packages/BumpyMatrix/
Package Downloads Report	Download Stats