DOI: 10.18129/B9.bioc.zellkonverter  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see zellkonverter.

Conversion Between scRNA-seq Objects

Bioconductor version: 3.16

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")):


To install this package, start R (version "4.2") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



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


biocViews DataImport, DataRepresentation, SingleCell, Software
Version 1.8.0
In Bioconductor since BioC 3.12 (R-4.0) (2.5 years)
License MIT + file LICENSE
Imports Matrix, basilisk, reticulate, SingleCellExperiment(>= 1.11.6), SummarizedExperiment, DelayedArray, methods, S4Vectors, utils, cli
Suggests anndata, BiocFileCache, BiocStyle, covr, HDF5Array, knitr, pkgload, rmarkdown, rhdf5, scRNAseq, spelling, testthat, withr
URL https://github.com/theislab/zellkonverter
BugReports https://github.com/theislab/zellkonverter/issues
Depends On Me OSCA.intro
Imports Me velociraptor
Suggests Me cellxgenedp, HDF5Array
Links To Me
Build Report  

Package Archives

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

Source Package zellkonverter_1.8.0.tar.gz
Windows Binary zellkonverter_1.8.0.zip
macOS Binary (x86_64) zellkonverter_1.8.0.tgz
macOS Binary (arm64) zellkonverter_1.8.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/zellkonverter
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/zellkonverter
Bioc Package Browser https://code.bioconductor.org/browse/zellkonverter/
Package Short Url https://bioconductor.org/packages/zellkonverter/
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