Please refer to the documentation. In particular, the
and the tutorials:
- Paired integration and query-to-reference mapping
- Trimodal integration and query-to-reference mapping
You need to have Python 3.10 or newer installed on your system. We recommend installing Mambaforge.
To create and activate a new environment:
mamba create --name multigrate python=3.10
mamba activate multigrateNext, there are several alternative options to install multigrate:
- Install the latest release of
multigratefrom PyPI:
pip install multigrate- Or install the latest development version:
pip install git+https://github.com/theislab/multigrate.git@mainSee the changelog.
If you found a bug, please use the issue tracker.
Multigrate: Single-Cell Multi-Omic Data Integration
Mohammad Lotfollahi, Anastasia Litinetskaya, and Fabian J. Theis. 2022. 2024. bioRxiv. [https://doi.org/10.1101/2022.03.16.484643][https://doi.org/10.1101/2022.03.16.484643].
Code and notebooks to reproduce the results from the paper are available at https://github.com/theislab/multigrate_reproducibility.
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