CatReNet: interactive analysis of (auto-) catalytic reaction networks.

ABSTRACT

SUMMARY: Catalytic reaction networks serve as fundamental models for understanding biochemical systems. CatReNet is a novel software designed to facilitate interactive analysis of such networks. It offers fast and exact algorithms for computing various types of self-sustaining autocatalytic subnetworks, including so-called CAFs (constructively autocatalytic food-generated networks), RAFs (reflexively autocatalytic food-generated networks), and pseudo-RAFs. It provides dynamic visualizations to aid exploration and understanding. AVAILABILITY AND IMPLEMENTATION This open-source Java application runs on Linux, MacOS, and Windows. It is available at https//github.com/husonlab/catrenet under a GPL3 license.