LICENSE
MANIFEST.in
README.md
pyproject.toml
setup.cfg
biomass/__init__.py
biomass/core.py
biomass/model_object.py
biomass/plotting.py
biomass/result.py
biomass/version.py
biomass.egg-info/PKG-INFO
biomass.egg-info/SOURCES.txt
biomass.egg-info/dependency_links.txt
biomass.egg-info/requires.txt
biomass.egg-info/top_level.txt
biomass/analysis/__init__.py
biomass/analysis/initial_condition.py
biomass/analysis/parameter.py
biomass/analysis/reaction.py
biomass/analysis/util.py
biomass/construction/__init__.py
biomass/construction/julia_template.py
biomass/construction/reaction_rules.py
biomass/construction/text2model.py
biomass/construction/thermodynamic_restrictions.py
biomass/construction/template/__init__.py
biomass/construction/template/observable.py
biomass/construction/template/ode.py
biomass/construction/template/problem.py
biomass/construction/template/reaction_network.py
biomass/construction/template/search_param.py
biomass/construction/template/viz.py
biomass/construction/template/name2idx/__init__.py
biomass/construction/template/name2idx/parameters.py
biomass/construction/template/name2idx/species.py
biomass/dynamics/__init__.py
biomass/dynamics/signaling_systems.py
biomass/dynamics/solver.py
biomass/dynamics/temporal_dynamics.py
biomass/estimation/__init__.py
biomass/estimation/optimizer.py
biomass/estimation/search_util.py
biomass/models/__init__.py
biomass/models/_copy.py
biomass/models/Nakakuki_Cell_2010/__init__.py
biomass/models/Nakakuki_Cell_2010/observable.py
biomass/models/Nakakuki_Cell_2010/ode.py
biomass/models/Nakakuki_Cell_2010/problem.py
biomass/models/Nakakuki_Cell_2010/reaction_network.py
biomass/models/Nakakuki_Cell_2010/search_param.py
biomass/models/Nakakuki_Cell_2010/viz.py
biomass/models/Nakakuki_Cell_2010/name2idx/__init__.py
biomass/models/Nakakuki_Cell_2010/name2idx/parameters.py
biomass/models/Nakakuki_Cell_2010/name2idx/species.py
biomass/models/circadian_clock/__init__.py
biomass/models/circadian_clock/observable.py
biomass/models/circadian_clock/ode.py
biomass/models/circadian_clock/problem.py
biomass/models/circadian_clock/reaction_network.py
biomass/models/circadian_clock/search_param.py
biomass/models/circadian_clock/viz.py
biomass/models/circadian_clock/name2idx/__init__.py
biomass/models/circadian_clock/name2idx/parameters.py
biomass/models/circadian_clock/name2idx/species.py
biomass/models/g1s_transition/__init__.py
biomass/models/g1s_transition/observable.py
biomass/models/g1s_transition/ode.py
biomass/models/g1s_transition/problem.py
biomass/models/g1s_transition/reaction_network.py
biomass/models/g1s_transition/search_param.py
biomass/models/g1s_transition/viz.py
biomass/models/g1s_transition/name2idx/__init__.py
biomass/models/g1s_transition/name2idx/parameters.py
biomass/models/g1s_transition/name2idx/species.py
biomass/models/insulin_signaling/__init__.py
biomass/models/insulin_signaling/observable.py
biomass/models/insulin_signaling/ode.py
biomass/models/insulin_signaling/problem.py
biomass/models/insulin_signaling/reaction_network.py
biomass/models/insulin_signaling/search_param.py
biomass/models/insulin_signaling/viz.py
biomass/models/insulin_signaling/name2idx/__init__.py
biomass/models/insulin_signaling/name2idx/parameters.py
biomass/models/insulin_signaling/name2idx/species.py
biomass/models/mapk_cascade/__init__.py
biomass/models/mapk_cascade/observable.py
biomass/models/mapk_cascade/ode.py
biomass/models/mapk_cascade/problem.py
biomass/models/mapk_cascade/reaction_network.py
biomass/models/mapk_cascade/search_param.py
biomass/models/mapk_cascade/viz.py
biomass/models/mapk_cascade/name2idx/__init__.py
biomass/models/mapk_cascade/name2idx/parameters.py
biomass/models/mapk_cascade/name2idx/species.py
biomass/models/nfkb_pathway/__init__.py
biomass/models/nfkb_pathway/observable.py
biomass/models/nfkb_pathway/ode.py
biomass/models/nfkb_pathway/problem.py
biomass/models/nfkb_pathway/reaction_network.py
biomass/models/nfkb_pathway/search_param.py
biomass/models/nfkb_pathway/viz.py
biomass/models/nfkb_pathway/name2idx/__init__.py
biomass/models/nfkb_pathway/name2idx/parameters.py
biomass/models/nfkb_pathway/name2idx/species.py
biomass/models/pan_rtk/__init__.py
biomass/models/pan_rtk/observable.py
biomass/models/pan_rtk/ode.py
biomass/models/pan_rtk/problem.py
biomass/models/pan_rtk/reaction_network.py
biomass/models/pan_rtk/search_param.py
biomass/models/pan_rtk/viz.py
biomass/models/pan_rtk/name2idx/__init__.py
biomass/models/pan_rtk/name2idx/parameters.py
biomass/models/pan_rtk/name2idx/species.py
biomass/models/prolif_quies/__init__.py
biomass/models/prolif_quies/observable.py
biomass/models/prolif_quies/ode.py
biomass/models/prolif_quies/problem.py
biomass/models/prolif_quies/reaction_network.py
biomass/models/prolif_quies/search_param.py
biomass/models/prolif_quies/viz.py
biomass/models/prolif_quies/name2idx/__init__.py
biomass/models/prolif_quies/name2idx/parameters.py
biomass/models/prolif_quies/name2idx/species.py
biomass/models/tgfb_smad/__init__.py
biomass/models/tgfb_smad/observable.py
biomass/models/tgfb_smad/ode.py
biomass/models/tgfb_smad/problem.py
biomass/models/tgfb_smad/reaction_network.py
biomass/models/tgfb_smad/search_param.py
biomass/models/tgfb_smad/viz.py
biomass/models/tgfb_smad/name2idx/__init__.py
biomass/models/tgfb_smad/name2idx/parameters.py
biomass/models/tgfb_smad/name2idx/species.py
tests/test_circadian_clock.py
tests/test_fos_model.py
tests/test_g1s_transition.py
tests/test_insulin_signaling.py
tests/test_mapk_cascade.py
tests/test_nfkb_pathway.py
tests/test_pan_rtk.py
tests/test_prolif_quies.py
tests/test_tgfb_smad.py
tests/test_text2model/C.py
tests/test_text2model/__init__.py
tests/test_text2model/test_error_message.py
tests/test_text2model/test_fos_model_from_txt.py
tests/test_text2model/test_graph.py
tests/test_text2model/test_model_construction.py
tests/test_text2model/test_state_transition.py
tests/test_text2model/test_thermodynamic_restriction.py