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Finish Python Version of the iMAT algorithm #8

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ScottCampit opened this issue May 25, 2020 · 0 comments
Open

Finish Python Version of the iMAT algorithm #8

ScottCampit opened this issue May 25, 2020 · 0 comments
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enhancement New feature or request help wanted Extra attention is needed

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ScottCampit commented May 25, 2020 •
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The constrain_flux_regulation or CFR algorithm is based off the iMAT algorithm. This uses a list of up- or downregulated genes, and constrains the model fluxes to maximize flux through reactions encoded by upregulated genes, and minimize flux through reactions encoded by downregulated genes.

This algorithm has been written out in MATLAB. However, a Python version would be desirable to perform COBRA analyses using Python. Thus, @ScottCampit has been working on a version of the constrain_flux_regulation algorithm in the PythonCOBRA directory.

TODO:

  • Finish the algorithm
@ScottCampit ScottCampit added enhancement New feature or request help wanted Extra attention is needed labels May 25, 2020
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