The Biochemical Abstract Machine BIOCHAM 4

version 4.6.19 June 2022

Inria EPI Lifeware, Centre Inria Saclay Ile de France
http://lifeware.inria.fr/biocham4/
https://gitlab.inria.fr/lifeware/biocham
developpers mailing list: biocham@inria.fr

Biocham logo

Overview

The Biochemical Abstract Machine (Biocham) is a modelling environment for systems biology and synthetic biology, based on the computational theory of Chemical Reaction Networks (CRN).

Biocham is mainly composed of :

Biocham is a free software protected by the GNU General Public License GPL version 2. This is an Open Source license that allows free usage of this software. Biocham is implemented in SWI-Prolog (43000 LOC) and interfaced with several third-party software.

Biocham 4 was first released in September 2017. Biocham 4 is a complete rewriting of Biocham 3 for easier maintenance. It integrates new features, in particular concerning

For the sake of reproducible research, Biocham 3 is still active on http://lifeware.inria.fr/biocham3 but no longer maintained. Biocham 0 was first released in 2002.

Feedback on the use of Biocham in applications, research or teaching are particularly welcomed on biocham@inria.fr

Demonstrations

Documentation

Unique features

Biocham implements some unique features for:

Online access to notebook - Docker image download - Installation from source files

Feedback and bug reports:

https://gitlab.inria.fr/lifeware/biocham/issues or mail to biocham@inria.fr