LICENSE
README.md
pyproject.toml
setup.py
src/scarcc/__init__.py
src/scarcc.egg-info/PKG-INFO
src/scarcc.egg-info/SOURCES.txt
src/scarcc.egg-info/dependency_links.txt
src/scarcc.egg-info/requires.txt
src/scarcc.egg-info/top_level.txt
src/scarcc/data_analysis/__init__.py
src/scarcc/data_analysis/biomass/__init__.py
src/scarcc/data_analysis/biomass/_pathway_summary.py
src/scarcc/data_analysis/biomass/growth_summary.py
src/scarcc/data_analysis/biomass/plot_growth_curve.py
src/scarcc/data_analysis/drug_combination_response/__init__.py
src/scarcc/data_analysis/drug_combination_response/classification.py
src/scarcc/data_analysis/flux/__init__.py
src/scarcc/data_analysis/flux/carbon_allocation.py
src/scarcc/data_analysis/flux/flux_correction.py
src/scarcc/data_analysis/flux/flux_ratio_analysis.py
src/scarcc/data_analysis/flux/flux_snapshot.py
src/scarcc/data_analysis/plot/__init__.py
src/scarcc/data_analysis/plot/heatmap.py
src/scarcc/data_analysis/plot/kde.py
src/scarcc/data_analysis/plot/legend.py
src/scarcc/data_analysis/plot/scatter.py
src/scarcc/preparation/__init__.py
src/scarcc/preparation/find_directory.py
src/scarcc/preparation/metabolic_model/__init__.py
src/scarcc/preparation/metabolic_model/basic_model.py
src/scarcc/preparation/metabolic_model/core/__init__.py
src/scarcc/preparation/metabolic_model/core/component.py
src/scarcc/preparation/metabolic_model/core/flux_weighting.py
src/scarcc/preparation/metabolic_model/core/medium.py
src/scarcc/preparation/perturbation/__init__.py
src/scarcc/preparation/perturbation/alpha_finder/__init__.py
src/scarcc/preparation/perturbation/alpha_finder/alpha_finder.py
src/scarcc/preparation/perturbation/alpha_finder/coculture.py
src/scarcc/preparation/perturbation/alpha_finder/monoculture.py
src/scarcc/preparation/perturbation/function/__init__.py
src/scarcc/preparation/perturbation/function/iter_species.py
src/scarcc/preparation/perturbation/function/stoichiometry_scaling.py
src/scarcc/preparation/target_gene/__init__.py
src/scarcc/preparation/target_gene/process_double_gene.py
src/scarcc/sim_engine/__init__.py
src/scarcc/sim_engine/result_processing.py
src/scarcc/sim_engine/simulation_configuration.py
src/scarcc/sim_engine/simulation_workflow.py
src/scarcc/sim_engine/data_processing/__init__.py
src/scarcc/sim_engine/data_processing/preprocess_flux.py
src/scarcc/util/__init__.py
src/scarcc/util/util.py
test/test_Everything.py
test/test_basic_model.py
test/test_monoculture_search.py
test/test_stoichiometry_scaling.py