PSAMM is an open source software that is designed for the curation and analysis of metabolic models. It supports model version tracking, model annotation, data integration, data parsing and formatting, consistency checking, automatic gap filling, and model simulations.
If you use PSAMM in a publication, please cite: Steffensen JL, Dufault-Thompson K, Zhang Y. PSAMM: A Portable System for the Analysis of Metabolic Models. PLOS Comput Biol. Public Library of Science; 2016;12: e1004732. doi:10.1371/journal.pcbi.1004732
The tutorial will show you how to get started with metabolic model curation using PSAMM.
Installing the base PSAMM package is as simple as
pip install psamm
Pip automatically fetches the latest version from the Python Package Index. See the documentation for more information on installing PSAMM.
Read our comprehensive online documentation hosted by Read the Docs.
View the documentationOur project is open source software, developed with Python and hosted publicly as a GitHub project.
See the NEWS file for detailed information on the latest updates to PSAMM.
We have converted more than 50 published model to the PSAMM YAML format to demonstrate the capabilities of PSAMM to help with model curation. The models are hosted in a repository on GitHub .