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MuData (development version)

MuData

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

Serialization for MultiAssayExperiment Objects

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DOI: 10.18129/B9.bioc.MuData

Bioconductor version: Development (3.23)

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] ORCID iD ORCID: 0000-0001-8089-6983 , Ilia Kats [aut, cre] ORCID iD ORCID: 0000-0001-5220-5671

Maintainer: Ilia Kats <i.kats at dkfz-heidelberg.de>

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

Installation

To install this package, start R (version "4.6") 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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews DataImport, Software

Version 1.15.0

In Bioconductor since BioC 3.15 (R-4.2) (3.5 years)

License GPL-3

Depends Matrix, S4Vectors, rhdf5(>= 2.45)

Imports methods, stats, MultiAssayExperiment, SingleCellExperiment, SummarizedExperiment, DelayedArray, S4Vectors

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

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Package Archives

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

Source Package MuData_1.15.0.tar.gz

Windows Binary (x86_64)

macOS Binary (x86_64)

macOS Binary (arm64) MuData_1.15.0.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/

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