MuData

This is the development version of MuData; for the stable release version, see MuData.

Serialization for MultiAssayExperiment Objects


Bioconductor version: Development (3.20)

Save MultiAssayExperiments to h5mu files supported by muon and mudata. Muon is a Python framework for multimodal omics data analysis. It uses an HDF5-based format for data storage.

Author: Danila Bredikhin [aut, cre] , Ilia Kats [aut]

Maintainer: Danila Bredikhin <danila.bredikhin at embl.de>

Citation (from within R, enter citation("MuData")):

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("MuData")

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("MuData")
Blood CITE-seq with MuData HTML R Script
Cord Blood CITE-seq with MuData HTML R Script
Getting started with MuDataMae HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews DataImport, Software
Version 1.9.0
In Bioconductor since BioC 3.15 (R-4.2) (2 years)
License GPL-3
Depends Matrix, S4Vectors, rhdf5
Imports methods, stats, MultiAssayExperiment, SingleCellExperiment, SummarizedExperiment, DelayedArray
System Requirements
URL https://github.com/ilia-kats/MuData
Bug Reports https://github.com/ilia-kats/MuData/issues
See More
Suggests HDF5Array, rmarkdown, knitr, fs, testthat, BiocStyle, covr, SingleCellMultiModal, CiteFuse, scater
Linking To
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Depends On Me
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package MuData_1.9.0.tar.gz
Windows Binary MuData_1.9.0.zip (64-bit only)
macOS Binary (x86_64) MuData_1.9.0.tgz
macOS Binary (arm64) MuData_1.9.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/MuData
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/MuData
Bioc Package Browser https://code.bioconductor.org/browse/MuData/
Package Short Url https://bioconductor.org/packages/MuData/
Package Downloads Report Download Stats