zellkonverter

DOI: 10.18129/B9.bioc.zellkonverter    

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

Conversion Between scRNA-seq Objects

Bioconductor version: Development (3.13)

Provides methods to convert between Python AnnData objects and SingleCellExperiment objects. These are primarily intended for use by downstream Bioconductor packages that wrap Python methods for single-cell data analysis. It also includes functions to read and write H5AD files used for saving AnnData objects to disk.

Author: Luke Zappia [aut, cre] , Aaron Lun [aut]

Maintainer: Luke Zappia <luke at lazappi.id.au>

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

Installation

To install this package, start R (version "4.1") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("zellkonverter")

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("zellkonverter")

 

HTML R Script Converting to/from AnnData to SingleCellExperiments
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews DataImport, DataRepresentation, SingleCell, Software
Version 1.1.0
In Bioconductor since BioC 3.12 (R-4.0) (< 6 months)
License MIT + file LICENSE
Depends
Imports Matrix, basilisk, reticulate, SingleCellExperiment(>= 1.11.6), SummarizedExperiment, DelayedArray, methods, S4Vectors, utils
LinkingTo
Suggests covr, spelling, testthat, knitr, rmarkdown, BiocStyle, scRNAseq, HDF5Array, rhdf5
SystemRequirements
Enhances
URL https://github.com/theislab/zellkonverter
BugReports https://github.com/theislab/zellkonverter/issues
Depends On Me
Imports Me velociraptor
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package zellkonverter_1.1.0.tar.gz
Windows Binary zellkonverter_1.1.0.zip
macOS 10.13 (High Sierra) zellkonverter_1.1.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/zellkonverter
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/zellkonverter
Package Short Url https://bioconductor.org/packages/zellkonverter/
Package Downloads Report Download Stats

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