15.1.1.4.1.3. cobra.manipulation.modify

15.1.1.4.1.3.1. Module Contents

cobra.manipulation.modify._escape_str_id(id_str)

make a single string id SBML compliant

class cobra.manipulation.modify._GeneEscaper

visit_Name(node)

cobra.manipulation.modify.escape_ID(cobra_model)

makes all ids SBML compliant

cobra.manipulation.modify.rename_genes(cobra_model, rename_dict)

renames genes in a model from the rename_dict

cobra.manipulation.modify.convert_to_irreversible(cobra_model)

Split reversible reactions into two irreversible reactions

These two reactions will proceed in opposite directions. This guarentees that all reactions in the model will only allow positive flux values, which is useful for some modeling problems.

cobra_model: A Model object which will be modified in place.

cobra.manipulation.modify.revert_to_reversible(cobra_model, update_solution=True)

This function will convert an irreversible model made by convert_to_irreversible into a reversible model.

cobra_model : cobra.Model

A model which will be modified in place.

update_solution: bool

This option is ignored since model.solution was removed.