COCOA.jl – A Julia package for high-performance analysis of concordance and kinetic modules in biochemical networks
Discuss this preprint
Start a discussion What are Sciety discussions?Listed in
This article is not in any list yet, why not save it to one of your lists.Abstract
Summary
Recent advances in analysis of biochemical networks have contributed the identification of their modular structure based on the concept of multi reaction dependencies and kinetic coupling of reaction rates (Küken et al., 2022; Langary et al., 2025). Existing implementations of the algorithms to study modular structure do not scale well with the size of the networks, prohibiting their application with genome-scale networks. Here, we introduce COCOA.jl, a multithreaded Julia package for identification of concordant and kinetic modules, with applications in the study of concentration robustness.
Availability and implementation
COCOA.jl is implemented in Julia 1.12.2 and is freely available under the MIT license at https://github.com/antoniofranky/COCOA.jl . It runs on Linux, macOS, and Windows; installation is supported via the Julia package manager. COCOA.jl can be called from Python via JuliaCall.
Contact
antonschaf@posteo.de ; ankueken@uni-potsdam.de
