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Refactor/constrain enzymes #63

Merged
merged 5 commits into from Dec 12, 2018
Merged

Refactor/constrain enzymes #63

merged 5 commits into from Dec 12, 2018

Commits on Dec 11, 2018

  1. refactor: changeMedia_batch 

    simplified changeMedia_batch to only open the carbon source exchange rxn
    @BenjaSanchez
    BenjaSanchez committed Dec 11, 2018
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  2. refactor: c_source 

    added c_source as input to constrainEnzymes & flexibilizeProteins for making functions more generic
    @BenjaSanchez
    BenjaSanchez committed Dec 11, 2018
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  3. doc: input/output in functions 

    + updated readme (changeMedia_batch.m is now optional to modify)
    @BenjaSanchez
    BenjaSanchez committed Dec 11, 2018
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  4. fix: getConstrainedModel

    @BenjaSanchez
    BenjaSanchez committed Dec 11, 2018
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  5. chore: update yeastGEM 

    only model change is opening exchange of bicarbonate, which has no effect in the final simulations
    @BenjaSanchez
    BenjaSanchez committed Dec 11, 2018
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