MultimodalExperiment
This is the development version of MultimodalExperiment; for the stable release version, see MultimodalExperiment.
Integrative Bulk and Single-Cell Experiment Container
Bioconductor version: Development (3.24)
MultimodalExperiment is an S4 class that integrates bulk and single-cell experiment data; it is optimally storage-efficient, and its methods are exceptionally fast. It effortlessly represents multimodal data of any nature and features normalized experiment, subject, sample, and cell annotations, which are related to underlying biological experiments through maps. Its coordination methods are opt-in and employ database-like join operations internally to deliver fast and flexible management of multimodal data.
Author: Lucas Schiffer [aut, cre]
Maintainer: Lucas Schiffer <schiffer.lucas at gmail.com>
citation("MultimodalExperiment")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("MultimodalExperiment")
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("MultimodalExperiment")| MultimodalExperiment | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataRepresentation, Infrastructure, SingleCell, Software |
| Version | 1.13.0 |
| In Bioconductor since | BioC 3.17 (R-4.3) (3.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 4.3.0), IRanges, S4Vectors |
| Imports | BiocGenerics, MultiAssayExperiment, methods, utils |
| System Requirements | |
| URL |
See More
| Suggests | BiocStyle, knitr, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | MultimodalExperiment_1.13.0.tar.gz |
| Windows Binary (x86_64) | MultimodalExperiment_1.13.0.zip |
| macOS Binary (big-sur-x86_64) | MultimodalExperiment_1.13.0.tgz |
| macOS Binary (sonoma-arm64) | MultimodalExperiment_1.13.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/MultimodalExperiment |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MultimodalExperiment |
| Bioc Package Browser | https://code.bioconductor.org/browse/MultimodalExperiment/ |
| Package Short Url | https://bioconductor.org/packages/MultimodalExperiment/ |
| Package Downloads Report | Download Stats |