Theis Lab

Theis Lab at Institute of Computational Biology, Helmholtz Munich

Overview
Repositories
Projects
Packages
People

Pinned Loading

single-cell-best-practices single-cell-best-practices Public

https://www.sc-best-practices.org

Jupyter Notebook 1.3k 277
scvelo scvelo Public

RNA Velocity generalized through dynamical modeling

Python 508 114
scarches scarches Public

Reference mapping for single-cell genomics

Jupyter Notebook 407 71
scib scib Public

Benchmarking analysis of data integration tools

Python 429 76
ehrapy ehrapy Public

Electronic Health Record Analysis with Python.

Python 362 53
moscot moscot Public

Multi-omic single-cell optimal transport tools

Python 216 16

Repositories

Type Language Sort

single-cell-best-practices Public
https://www.sc-best-practices.org

theislab/single-cell-best-practices's past year of commit activity

Jupyter Notebook 1,256 277 50 3 Updated Aug 28, 2026
cellink Public
Scalable framework for integrating single-cell omics with genetic data using AnnData.

theislab/cellink's past year of commit activity

Python 21 Apache-2.0 5 5 1 Updated Aug 28, 2026
gh-dashboard Public
A dashboard of everything in the theislab GitHub repository

theislab/gh-dashboard's past year of commit activity

HTML 8 0 1 0 Updated Aug 28, 2026
interscale Public
InterScale: multi-scale cellular interaction analysis model for spatial transcriptomics

theislab/interscale's past year of commit activity

Python 12 BSD-3-Clause 1 8 2 Updated Aug 28, 2026
InterScale_reproducibility Public
InterScale's reproducibility repository.

theislab/InterScale_reproducibility's past year of commit activity

Jupyter Notebook 0 BSD-3-Clause 0 0 0 Updated Aug 26, 2026
moscot Public
Multi-omic single-cell optimal transport tools

theislab/moscot's past year of commit activity

Python 216 BSD-3-Clause 16 32 5 Updated Aug 25, 2026
ehrdata Public
A datastructure for EHR data

theislab/ehrdata's past year of commit activity

Python 15 Apache-2.0 7 10 3 Updated Aug 25, 2026
PDAC Public

theislab/PDAC's past year of commit activity

Jupyter Notebook 1 0 0 1 Updated Aug 25, 2026
anndata2ri Public
Convert between AnnData and SingleCellExperiment

theislab/anndata2ri's past year of commit activity

Python 152 GPL-3.0 19 11 0 Updated Aug 25, 2026
scanpydoc Public
Collection of Sphinx extensions similar to (but more flexible than) numpydoc

theislab/scanpydoc's past year of commit activity

Python 12 GPL-3.0 5 4 0 Updated Aug 25, 2026