Home
Login
Deutsch
Advanced Search
Browse by ...
Publication overview
Contact persons
Help
Publ. Version/Full Text
Research data
DOI
 |
Open Access Gold |
|
as soon as is submitted to ZB.
anndataR improves interoperability between R and Python in single-cell transcriptomics.
Bioinformatics 42:btag288 (2026)
Summary: Many single-cell transcriptomics datasets are stored in the HDF5-backed AnnData (H5AD) file format, as popularized by the Python scverse ecosystem. However, accessing these datasets from R, allowing users to take advantage of the strengths of each language, can be difficult. anndataR facilitates this access by allowing users to natively read and write H5AD files in R, convert them to and from SingleCellExperiment or Seurat objects, or even work with the resulting R AnnData object directly. We perform rigorous testing to ensure compatibility between Python-written and R-written H5AD files, guaranteeing long-term interoperability between languages. Availability and implementation: anndataR’s source code is available on GitHub at scverse/anndataR under the MIT license. It is compatible with R version 4.5, has been archived at 10.5281/zenodo.18775712 and included within Bioconductor: 10.18129/B9.bioc.anndataR. Installation instructions and tutorials can be found in the online documentation at anndatar.scverse.org. Issues can be reported at the GitHub repository. Code to reproduce the analyses performed can be found on GitHub at LouiseDck/anndataR-paper, archived at 10.5281/zenodo.18792241.
Altmetric
Additional Metrics?
Edit extra informations
Login
Publication type
Article: Journal article
Document type
Scientific Article
e-ISSN
1367-4811
Journal
Bioinformatics
Quellenangaben
Volume: 42,
Issue: 6,
Article Number: btag288
Publisher
Oxford University Press
Publishing Place
Oxford
Reviewing status
Peer reviewed
Institute(s)
Institute of Computational Biology (ICB)