biocentral_server

Compute functionality for biocentral. Provided via a dockerized FastAPI server.

Usage

Learn how to best use the biocentral_server functionality for your use case by taking the tour!

Or check out the API or Frontend directly.

Features and modules

These are the currently provided modules:

Module	Features	External Dependencies
embeddings	Embed protein sequences	biotrainer
ppi	Work with protein-protein interactions	hvi_toolkit
predict	Create predictions from pre-trained models	TMbed, VespaG
custom_models	Train and evaluate models trained on embeddings	biotrainer
proteins	Work with protein data	taxoniq

Installing and running

See the docs on how to get started with biocentral_server.

For development, see the development guide.

Citation

Please cite our paper if you are using biocentral in your work:

@Article{Franz2026,
  author    = {Franz, Sebastian and Olenyi, Tobias and Schloetermann, Paula and Smaoui, Amine and Jimenez-Soto, Luisa F. and Rost, Burkhard},
  journal   = {Journal of Molecular Biology},
  title     = {biocentral: embedding-based protein predictions},
  year      = {2026},
  issn      = {0022-2836},
  month     = jan,
  pages     = {169673},
  doi       = {10.1016/j.jmb.2026.169673},
  publisher = {Elsevier BV},
}