BumpyMatrix
This is the released version of BumpyMatrix; for the devel version, see BumpyMatrix.
Bumpy Matrix of Non-Scalar Objects
Bioconductor version: Release (3.23)
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")):Aaron Lun. BumpyMatrix: Bumpy Matrix of Non-Scalar Objects. doi:10.18129/B9.bioc.BumpyMatrix, R package version 1.20.0, https://bioconductor.org/packages/BumpyMatrix.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") 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 | 1.20.0 |
| In Bioconductor since | BioC 3.13 (R-4.1) (5.5 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, imageFeatureTCGA, jazzPanda, MerfishData, MouseGastrulationData, TENxXeniumData |
| Suggests Me | escheR, gDR, ggspavis, SpatialExperiment, STexampleData, tpSVG |
| Links To Me | |
| Build Report | Build Report, r-universe |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | BumpyMatrix_1.20.0.tar.gz |
| Windows Binary (x86_64) | BumpyMatrix_1.20.0.zip |
| macOS Binary (big-sur-x86_64) | BumpyMatrix_1.20.0.tgz |
| macOS Binary (sonoma-arm64) | BumpyMatrix_1.20.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/BumpyMatrix |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/BumpyMatrix |
| Package Short Url | https://bioconductor.org/packages/BumpyMatrix/ |
| Package Downloads Report | Download Stats |