BumpyMatrix
This is the development version of BumpyMatrix; for the stable release version, see BumpyMatrix.
Bumpy Matrix of Non-Scalar Objects
Bioconductor version: Development (3.20)
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>
citation("BumpyMatrix")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
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")
The BumpyMatrix class | HTML | R Script |
Reference Manual | ||
LICENSE | Text |
Details
biocViews | DataRepresentation, Infrastructure, Software |
Version | 1.13.0 |
In Bioconductor since | BioC 3.13 (R-4.1) (3.5 years) |
License | MIT + file LICENSE |
Depends | |
Imports | utils, methods, Matrix, S4Vectors, IRanges |
System Requirements | |
URL | https://bioconductor.org/packages/BumpyMatrix |
Bug Reports | https://github.com/LTLA/BumpyMatrix/issues |
See More
Suggests | BiocStyle, knitr, rmarkdown, testthat |
Linking To | |
Enhances | |
Depends On Me | alabaster.bumpy |
Imports Me | CoreGx, gDRcore, gDRimport, gDRutils, MerfishData, MouseGastrulationData, TENxXeniumData |
Suggests Me | escheR, gDR, ggspavis, SpatialExperiment, tpSVG, STexampleData |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | BumpyMatrix_1.13.0.tar.gz |
Windows Binary | BumpyMatrix_1.13.0.zip |
macOS Binary (x86_64) | BumpyMatrix_1.13.0.tgz |
macOS Binary (arm64) | BumpyMatrix_1.13.0.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 |