Name Last modified Size Description
Parent Directory - model_m2_run.tlpx 2019-03-01 11:57 2.7M Model_M2.tlpx 2019-03-01 11:56 15K model_m1_run.tlpx 2019-03-01 11:57 956K Model_M1.tlpx 2019-03-01 11:56 349K derivation_tree_full_m2.tlpx 2019-03-01 11:56 3.7M derivation_tree_full_m1.tlpx 2019-03-01 11:56 960K computeProba.py 2019-03-01 11:56 1.7K
This page contains all needed files to reproduce the experiments showed in this paper:
Strategy-Driven Exploration for Rule-Based Models of Biochemical Systems with Porgy
Oana Andrei, Maribel Fernández, Hélène Kirchner, Bruno Pinaud
Bill Hlavacek (eds). Modeling Biomolecular Site Dynamics, 1945, Springer, In press, Methods in Molecular Biology, ISBN 978-1-4939-9100-6 (https://www.springer.com/book/9781493991006)
The files above (numbered as in the paper) are designed for the latest nightly build version of Porgy. See the "Current Version" of Porgy here.
The complete user manual of the strategy language can be download here.