Index

A

a (mgrowthctrl.models.crm.model.CRModelParams attribute)

ArrayBackend (class in mgrowthctrl.backends.array) as_dict() (mgrowthctrl.models.crm.model.CRModelParams method)

B

b (mgrowthctrl.models.crm.model.CRModelParams attribute)

BaseController (class in mgrowthctrl.controllers.base) BaseODEModel (class in mgrowthctrl.models.base)

C

ClosedLoopNeuralController (class in mgrowthctrl.controllers.closed_loop) compute_loss() (mgrowthctrl.controllers.base.BaseController method) compute_rhs() (mgrowthctrl.models.base.BaseODEModel method) (mgrowthctrl.models.crm.model.CRModel method) control_rhs() (mgrowthctrl.models.base.BaseODEModel method)

criterion (mgrowthctrl.controllers.base.BaseController attribute) crm_fit_mcmc_from_df() (in module mgrowthctrl.models.crm.fit) crm_fit_mechanistic() (in module mgrowthctrl.models.crm.fit) CRModel (class in mgrowthctrl.models.crm.model) CRModelParams (class in mgrowthctrl.models.crm.model)

D

D (mgrowthctrl.models.crm.model.CRModelParams attribute) Dataloader (class in mgrowthctrl.utils.data)

DEFAULT_ROOT_URL (in module mgrowthctrl.utils.data) DType (in module mgrowthctrl.models.crm.model)

E

end_time (mgrowthctrl.utils.data.Dataloader property)

evaluate() (mgrowthctrl.models.base.BaseODEModel method)

F

fit() (mgrowthctrl.controllers.base.BaseController method) (mgrowthctrl.models.crm.model.CRModel method) fit_least_squares() (mgrowthctrl.models.crm.model.CRModel method) fit_mcmc() (mgrowthctrl.models.crm.model.CRModel method) forward() (mgrowthctrl.controllers.base.BaseController method) (mgrowthctrl.controllers.closed_loop.ClosedLoopNeuralController method) (mgrowthctrl.controllers.open_loop.OpenLoopNeuralController method)

from_dict() (mgrowthctrl.models.crm.model.CRModel static method) from_shapes() (mgrowthctrl.models.crm.model.CRModelParams static method) from_single_species_data() (mgrowthctrl.models.crm.model.CRModel class method)

G

get_input_history() (mgrowthctrl.controllers.base.BaseController method) (mgrowthctrl.controllers.closed_loop.ClosedLoopNeuralController method) (mgrowthctrl.controllers.open_loop.OpenLoopNeuralController method)

get_params() (mgrowthctrl.models.crm.model.CRModel method)

K

k (mgrowthctrl.models.crm.model.CRModelParams attribute)

K_ij (mgrowthctrl.models.crm.model.CRModelParams attribute)

L

load_local_data() (mgrowthctrl.utils.data.Dataloader method)

load_remote_experiment() (mgrowthctrl.utils.data.Dataloader method) LossFunction (in module mgrowthctrl.controllers.base)

M

mgrowthctrl.backends.array module mgrowthctrl.controllers.base module mgrowthctrl.controllers.closed_loop module mgrowthctrl.controllers.open_loop module mgrowthctrl.models.base module mgrowthctrl.models.crm.model module mgrowthctrl.utils.data module

mgrowthctrl.utils.save module ModelNames (class in mgrowthctrl.models.base) module mgrowthctrl.backends.array mgrowthctrl.controllers.base mgrowthctrl.controllers.closed_loop mgrowthctrl.controllers.open_loop mgrowthctrl.models.base mgrowthctrl.models.crm.model mgrowthctrl.utils.data mgrowthctrl.utils.save

N

n_resources (mgrowthctrl.controllers.base.BaseController attribute) n_species (mgrowthctrl.controllers.base.BaseController attribute)

net (mgrowthctrl.controllers.closed_loop.ClosedLoopNeuralController attribute) (mgrowthctrl.controllers.open_loop.OpenLoopNeuralController attribute) NumpyBackend (class in mgrowthctrl.backends.array)

O

obs_dim (mgrowthctrl.controllers.closed_loop.ClosedLoopNeuralController attribute)

OpenLoopNeuralController (class in mgrowthctrl.controllers.open_loop)

P

ParamsDict (in module mgrowthctrl.models.crm.model) plot_data_with_overlay() (in module mgrowthctrl.utils.plot) plot_mcmc_error_evolution() (in module mgrowthctrl.utils.plot)

plot_parameter_distributions() (in module mgrowthctrl.utils.plot) predict() (mgrowthctrl.models.base.BaseODEModel method) predict_u() (mgrowthctrl.controllers.base.BaseController method)

R

r (mgrowthctrl.models.crm.model.CRModelParams attribute)

S

S (mgrowthctrl.models.base.ModelNames attribute) S_err (mgrowthctrl.models.base.ModelNames attribute) S_err_names (mgrowthctrl.utils.data.Dataloader property) s_idx (mgrowthctrl.controllers.base.BaseController attribute) S_in (mgrowthctrl.models.crm.model.CRModelParams attribute) S_names (mgrowthctrl.utils.data.Dataloader property)

save_simulation_results() (in module mgrowthctrl.utils.save) set_params() (mgrowthctrl.models.crm.model.CRModel method) simulate() (mgrowthctrl.controllers.base.BaseController method) (mgrowthctrl.models.crm.model.CRModel method) solve() (mgrowthctrl.models.base.BaseODEModel method) start_time (mgrowthctrl.utils.data.Dataloader property)

T

to_dict() (mgrowthctrl.models.crm.model.CRModel method)

TorchBackend (class in mgrowthctrl.backends.array)

X

X (mgrowthctrl.models.base.ModelNames attribute) X_err (mgrowthctrl.models.base.ModelNames attribute)

X_err_names (mgrowthctrl.utils.data.Dataloader property) x_idx (mgrowthctrl.controllers.base.BaseController attribute) X_names (mgrowthctrl.utils.data.Dataloader property)

Y

y0 (mgrowthctrl.utils.data.Dataloader property)