1.2 Metabolite Knockout Landscape¶
from bokeh.io import output_notebook
output_notebook()
from cameo import models
from marsi.cobra.flux_analysis import metabolite_knockout_fitness
Metabolite Knockout Landscape¶
This method is used to provide an overview of how different metabolite knockouts change the fitness of the model. The simulations can be run with different methods: fba, moma, room, etc.
model = models.bigg.iJO1366
result = metabolite_knockout_fitness(model, progress=True, objective=model.reactions.BIOMASS_Ec_iJO1366_core_53p95M)
result
<marsi.cobra.flux_analysis.analysis.MetaboliteKnockoutFitness at 0x10b8806a0>