3.1.1.7.1.1. etfl.optim.config

Solver configuration helpers

3.1.1.7.1.1.1. Module Contents

3.1.1.7.1.1.1.1. Functions

standard_solver_config(model, verbose=True)	Basic solver settings for ETFL
gene_ko_config(model)	Solver settings for performing gene KO. Tuned using the grbtune tool on the
growth_uptake_config(model)	Solver settings for performing growth vs uptake studies. Tuned using the
redhuman_config(model)	Solver settings for optimizing growth on human cancer models. Tuned using the

ETFL.standard_solver_config(model, verbose=True)

Basic solver settings for ETFL :param model: :param verbose: :return:

ETFL.gene_ko_config(model)

Solver settings for performing gene KO. Tuned using the grbtune tool on the vETFL model iJO1366. The gene KO analysis is turned into a feasibility problem by putting a lower bound on growth.

Parameters

model –

Returns

ETFL.growth_uptake_config(model)

Solver settings for performing growth vs uptake studies. Tuned using the grbtune tool on the vETFL model iJO1366.

Parameters

model –

Returns

ETFL.redhuman_config(model)

Solver settings for optimizing growth on human cancer models. Tuned using the grbtune tool on the vETFL model from reduced RECON3.

Parameters

model –

Returns