This repository contains the data and scripts (Python 3.6.8) that were used in in-silico simulations of Candida albicans-Lactobacillus rhamnosus-HumanEpithelialCells interaction simulations described by Alonso-Roman et al. (2021). Running the codes in Calbicans_LRhamnosus_EpithelialCells_Interaction/src/ will generate the results in Calbicans_LRhamnosus_EpithelialCells_Interaction/results.
For instance, one can use the following Terminal command
$ python Calbicans_LRhamnosus_EpithelialCells_Interaction/src/fva_bound_adj_metab.py
Or the following in interactive python (e.g. ipython3)
%run Calbicans_LRhamnosus_EpithelialCells_Interaction/src/fva_bound_adj_metab.py
Dependencies
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COBRApy 0.17.1
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IBM CPLEX 12.8.0.0
Python Built-In Modules:
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numpy
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copy
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pandas
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scipy
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more_itertools