Index

A

add_cms_to_plot() (in module epimodel.pymc3_models.base_model)

AdditiveModel (class in epimodel.pymc3_models.models) AsymmetricLaplace (class in epimodel.pymc3_distributions.asymmetric_laplace)

B

BaseCMModel (class in epimodel.pymc3_models.base_model) bootstrapped_negbinom_values() (in module epimodel.pymc3_models.epi_params) build_model() (epimodel.pymc3_models.models.AdditiveModel method) (epimodel.pymc3_models.models.CasesOnlyModel method) (epimodel.pymc3_models.models.DeathsOnlyModel method) (epimodel.pymc3_models.models.DefaultModel method) (epimodel.pymc3_models.models.DifferentEffectsModel method) (epimodel.pymc3_models.models.DiscreteRenewalFixedGIModel method) (epimodel.pymc3_models.models.DiscreteRenewalModel method) (epimodel.pymc3_models.models.NoisyRModel method)

build_npi_prior() (epimodel.pymc3_models.base_model.BaseCMModel method)

C

CasesOnlyModel (class in epimodel.pymc3_models.models) ci_to_mean_sd() (in module epimodel.pymc3_models.epi_params)

conditional_activation_plot() (epimodel.preprocessing.preprocessed_data.PreprocessedData method) cumulative_days_plot() (epimodel.preprocessing.preprocessed_data.PreprocessedData method)

D

DeathsOnlyModel (class in epimodel.pymc3_models.models) DefaultModel (class in epimodel.pymc3_models.models) DifferentEffectsModel (class in epimodel.pymc3_models.models)

DiscreteRenewalFixedGIModel (class in epimodel.pymc3_models.models) DiscreteRenewalModel (class in epimodel.pymc3_models.models) discretise_samples() (epimodel.pymc3_models.epi_params.EpidemiologicalParameters method)

E

EpidemiologicalParameters (class in epimodel.pymc3_models.epi_params) epimodel.preprocessing.data_merger module epimodel.preprocessing.data_preprocessor module epimodel.preprocessing.preprocessed_data module

epimodel.pymc3_distributions.asymmetric_laplace module epimodel.pymc3_models.base_model module epimodel.pymc3_models.epi_params module epimodel.pymc3_models.models module

G

generate_dist_samples() (epimodel.pymc3_models.epi_params.EpidemiologicalParameters method) generate_gi() (epimodel.pymc3_models.epi_params.EpidemiologicalParameters method)

generate_pmf_statistics_str() (epimodel.pymc3_models.epi_params.EpidemiologicalParameters method) generate_reporting_and_fatality_delays() (epimodel.pymc3_models.epi_params.EpidemiologicalParameters method) get_model_build_dict() (epimodel.pymc3_models.epi_params.EpidemiologicalParameters method)

L

logp() (epimodel.pymc3_distributions.asymmetric_laplace.AsymmetricLaplace method)

M

mask_region() (epimodel.preprocessing.preprocessed_data.PreprocessedData method) mask_region_ends() (epimodel.preprocessing.preprocessed_data.PreprocessedData method) mask_reopenings() (epimodel.preprocessing.preprocessed_data.PreprocessedData method) module epimodel.preprocessing.data_merger epimodel.preprocessing.data_preprocessor epimodel.preprocessing.preprocessed_data epimodel.pymc3_distributions.asymmetric_laplace epimodel.pymc3_models.base_model epimodel.pymc3_models.epi_params epimodel.pymc3_models.models

N

nCMs() (epimodel.pymc3_models.base_model.BaseCMModel property) nDs() (epimodel.pymc3_models.base_model.BaseCMModel property)

NoisyRModel (class in epimodel.pymc3_models.models) nRs() (epimodel.pymc3_models.base_model.BaseCMModel property)

P

plot_effect() (epimodel.pymc3_models.base_model.BaseCMModel method) preprocess_data() (in module epimodel.preprocessing.data_preprocessor)

PreprocessedData (class in epimodel.preprocessing.preprocessed_data) produce_CIs() (in module epimodel.pymc3_models.base_model)

R

random() (epimodel.pymc3_distributions.asymmetric_laplace.AsymmetricLaplace method) reduce_regions_from_index() (epimodel.preprocessing.preprocessed_data.PreprocessedData method)

remove_regions_from_codes() (epimodel.preprocessing.preprocessed_data.PreprocessedData method) remove_regions_min_deaths() (epimodel.preprocessing.preprocessed_data.PreprocessedData method)

S

summarise_parameters() (epimodel.pymc3_models.epi_params.EpidemiologicalParameters method)

summary_plot() (epimodel.preprocessing.preprocessed_data.PreprocessedData method)

U

unmask_all() (epimodel.preprocessing.preprocessed_data.PreprocessedData method)