Index

A

accept_reject() (cosolvkit.cosolvent_system.CosolventSystem method) (cosolvkit.CosolventSystem method) add_cosolvents() (cosolvkit.cosolvent_system.CosolventSystem method) (cosolvkit.CosolventSystem method) add_cosolvents_adaptive() (cosolvkit.cosolvent_system.CosolventSystem method) (cosolvkit.CosolventSystem method)

add_membrane() (cosolvkit.cosolvent_system.CosolventMembraneSystem method) add_repulsive_forces() (cosolvkit.cosolvent_system.CosolventSystem method) (cosolvkit.CosolventSystem method) add_variants() (in module cosolvkit.utils) Analysis (class in cosolvkit.analysis) atomic_grid_free_energy() (cosolvkit.analysis.Analysis method)

B

build() (cosolvkit.cosolvent_system.CosolventMembraneSystem method) (cosolvkit.cosolvent_system.CosolventSystem method) (cosolvkit.CosolventSystem method)

C

calculate_mol_volume() (cosolvkit.cosolvent_system.CosolventSystem method) (cosolvkit.CosolventSystem method) check_coordinates_to_add() (cosolvkit.cosolvent_system.CosolventSystem method) (cosolvkit.CosolventSystem method) Config (class in cosolvkit.config) CosolventMembraneSystem (class in cosolvkit.cosolvent_system) CosolventMolecule (class in cosolvkit) (class in cosolvkit.cosolvent_system) CosolventSystem (class in cosolvkit) (class in cosolvkit.cosolvent_system) cosolvkit module

cosolvkit.analysis module cosolvkit.config module cosolvkit.cosolvent_system module cosolvkit.simulation module cosolvkit.utils module cubic_nanometers_to_liters() (cosolvkit.cosolvent_system.CosolventSystem method) (cosolvkit.CosolventSystem method)

D

delete_edges_points() (cosolvkit.cosolvent_system.CosolventSystem method) (cosolvkit.CosolventSystem method)

E

export_atomic_grid_free_energy() (cosolvkit.analysis.Analysis method)

export_density() (cosolvkit.analysis.Analysis method) export_histogram() (cosolvkit.analysis.Analysis method)

F

fitting_checks() (cosolvkit.cosolvent_system.CosolventSystem method) (cosolvkit.CosolventSystem method)

fix_pdb() (in module cosolvkit.utils) from_config() (cosolvkit.config.Config class method)

G

generate_density_maps() (cosolvkit.analysis.Report method) (cosolvkit.Report method) generate_pymol_reports() (cosolvkit.analysis.Report method) (cosolvkit.Report method)

generate_report() (cosolvkit.analysis.Report method) (cosolvkit.Report method) generate_rotation() (cosolvkit.cosolvent_system.CosolventSystem method) (cosolvkit.CosolventSystem method) get_defaults_dict() (cosolvkit.config.Config class method)

I

is_in_box() (cosolvkit.cosolvent_system.CosolventSystem method) (cosolvkit.CosolventSystem method)

L

liters_to_cubic_nanometers() (cosolvkit.cosolvent_system.CosolventSystem method) (cosolvkit.CosolventSystem method) load_system() (cosolvkit.cosolvent_system.CosolventSystem method) (cosolvkit.CosolventSystem method)

local_search() (cosolvkit.cosolvent_system.CosolventSystem method) (cosolvkit.CosolventSystem method)

M

module cosolvkit cosolvkit.analysis cosolvkit.config cosolvkit.cosolvent_system cosolvkit.simulation cosolvkit.utils

MutuallyExclusiveParametersError

R

reduce_copies() (cosolvkit.cosolvent_system.CosolventSystem method) (cosolvkit.CosolventSystem method)

Report (class in cosolvkit) (class in cosolvkit.analysis) run_simulation() (in module cosolvkit.simulation)

S

save_pdb() (cosolvkit.cosolvent_system.CosolventSystem method) (cosolvkit.CosolventSystem method) save_system() (cosolvkit.cosolvent_system.CosolventSystem method) (cosolvkit.CosolventSystem method)

save_topology() (cosolvkit.cosolvent_system.CosolventSystem method) (cosolvkit.CosolventSystem method)