Timothy Páez-Watson, Ricardo Hernández Medina, Loek Vellekoop, Mark C M van Loosdrecht, S Aljoscha Wahl
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Conditional flux balance analysis toolbox for python: application to research metabolism in cyclic environments.
Summary: We present py_cFBA, a Python-based toolbox for conditional flux balance analysis (cFBA). Our toolbox allows for an easy implementation of cFBA models using a well-documented and modular approach and supports the generation of Systems Biology Markup Language models. The toolbox is designed to be user-friendly, versatile, and freely available to non-commercial users, serving as a valuable resource for researchers predicting metabolic behaviour with resource allocation in dynamic-cyclic environments.
Availability and implementation: Extensive documentation, installation steps, tutorials, and examples are available at https://tp-watson-python-cfba.readthedocs.io/en/. The py_cFBA python package is available at https://pypi.org/project/py-cfba/.
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