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>
citation("BumpyMatrix")):
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")| The BumpyMatrix class | HTML | R Script |
| Reference Manual | ||
| LICENSE | Text |
Details
| biocViews | DataRepresentation, Infrastructure, Software |
| Version | 1.6.0 |
| In Bioconductor since | BioC 3.13 (R-4.1) (3 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 | |
| Imports Me | CoreGx, MerfishData, MouseGastrulationData |
| Suggests Me | ggspavis, SpatialExperiment, STexampleData |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | BumpyMatrix_1.6.0.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 |
| Old Source Packages for BioC 3.16 | Source Archive |