MultiAssayExperiment
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see MultiAssayExperiment.
Software for the integration of multi-omics experiments in Bioconductor
Bioconductor version: 3.9
MultiAssayExperiment harmonizes data management of multiple assays performed on an overlapping set of specimens. It provides a familiar Bioconductor user experience by extending concepts from SummarizedExperiment, supporting an open-ended mix of standard data classes for individual assays, and allowing subsetting by genomic ranges or rownames.
Author: Marcel Ramos [aut, cre], Levi Waldron [aut], MultiAssay SIG [ctb]
Maintainer: Marcel Ramos <marcel.ramos at roswellpark.org>
citation("MultiAssayExperiment")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("MultiAssayExperiment")
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("MultiAssayExperiment")| Coordinating Analysis of Multi-Assay Experiments | HTML | R Script |
| HDF5Array and MultiAssayExperiment | HTML | R Script |
| MultiAssayExperiment_cheatsheet.pdf | ||
| Quick-start Guide | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataRepresentation, Infrastructure, Software |
| Version | 1.10.4 |
| In Bioconductor since | BioC 3.4 (R-3.3) (7.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.6.0), SummarizedExperiment(>= 1.3.81) |
| Imports | methods, GenomicRanges(>= 1.25.93), BiocGenerics, S4Vectors(>= 0.17.5), IRanges, Biobase, stats, tidyr, utils |
| System Requirements | |
| URL | http://waldronlab.io/MultiAssayExperiment/ |
| Bug Reports | https://github.com/waldronlab/MultiAssayExperiment/issues |
See More
| Suggests | BiocStyle, testthat, knitr, rmarkdown, R.rsp, HDF5Array, RaggedExperiment, UpSetR, survival, survminer |
| Linking To | |
| Enhances | |
| Depends On Me | ClassifyR, curatedTCGAData, evaluomeR, glmSparseNet, hipathia, InTAD, missRows, OMICsPCAdata, yriMulti |
| Imports Me | AffiXcan, AMARETTO, animalcules, CAGEr, ELMER, GOpro, MOFA, OMICsPCA, omicsPrint, TCGAutils |
| Suggests Me | BiocOncoTK, brgedata, CNVRanger, deco, MOFAdata, MultiDataSet, RaggedExperiment |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | MultiAssayExperiment_1.10.4.tar.gz |
| Windows Binary | MultiAssayExperiment_1.10.4.zip |
| Mac OS X 10.11 (El Capitan) | MultiAssayExperiment_1.10.4.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/MultiAssayExperiment |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MultiAssayExperiment |
| Bioc Package Browser | https://code.bioconductor.org/browse/MultiAssayExperiment/ |
| Package Short Url | https://bioconductor.org/packages/MultiAssayExperiment/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |