BoNesis - Boolean Network synthesis

Synthesis of Most Permissive Boolean Networks from network architecture and dynamical properties

This software is distributed under the CeCILL v2.1 free software license (GNU GPL compatible).

Main related publications

Synthesis of Boolean Networks from Biological Dynamical Constraints using Answer-Set Programming (S Chevalier, C Froidevaux, L Paulevé, A Zinovyev). In 2019 IEEE 31st International Conference on Tools with Artificial Intelligence (ICTAI), 34–41. Portland, Oregon, United States, 2019. IEEE. doi:10.1109/ICTAI.2019.00014
Synthesis and Simulation of Ensembles of Boolean Networks for Cell Fate Decision (S Chevalier, V Noël, L Calzone, A Zinovyev, L Paulevé) In 18th International Conference on Computational Methods in Systems Biology (CMSB). Online, Germany, 2020. Preprint at https://hal.archives-ouvertes.fr/hal-02898849/file/cmsb2020.pdf

Marker and source-marker reprogramming of Most Permissive Boolean networks and ensembles with BoNesis (L Paulevé), Peer Community Journal, 2023 doi:10.24072/pcjournal.255

pip install bonesis

conda install -c potassco -c colomoto bonesis