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simple_network_sim package
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simple_network_sim
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B
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C
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D
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E
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G
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H
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I
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L
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M
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N
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O
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P
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R
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S
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T
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U
A
abcsmc() (in module tests.conftest)
AgeRange (class in simple_network_sim.loaders)
aggregateResults() (in module simple_network_sim.sampleUseOfModel)
B
base_data_dir() (in module tests.conftest)
basicSimulationInternalAgeStructure() (in module simple_network_sim.network_of_populations)
build_args() (in module simple_network_sim.sampleUseOfModel)
C
calculateExposed() (in module simple_network_sim.network_of_populations)
calculateInfectiousOverTime() (in module tests.utils)
compare_mpl_plots() (in module tests.utils)
contact() (simple_network_sim.loaders.Multiplier property)
create_baseline() (in module tests.utils)
createExposedRegions() (in module simple_network_sim.network_of_populations)
createNetworkOfPopulation() (in module simple_network_sim.network_of_populations)
createNextStep() (in module simple_network_sim.network_of_populations)
D
data_api() (in module tests.conftest)
data_api_stochastic() (in module tests.conftest)
dateRange() (in module simple_network_sim.network_of_populations)
description() (simple_network_sim.sampleUseOfModel.Result property)
distributeContactsOverAges() (in module simple_network_sim.network_of_populations)
E
endDate() (simple_network_sim.network_of_populations.NetworkOfPopulation property)
expose() (in module simple_network_sim.network_of_populations)
G
generateMeanPlot() (in module simple_network_sim.common)
genGraphFromContactFile() (in module simple_network_sim.loaders)
get_repo_info() (in module simple_network_sim.common)
getAges() (in module simple_network_sim.network_of_populations)
getExternalInfectiousContacts() (in module simple_network_sim.network_of_populations)
getIncomingInfectiousContactsByNode() (in module simple_network_sim.network_of_populations)
getInfectious() (in module simple_network_sim.network_of_populations)
getInitialParameter() (in module simple_network_sim.network_of_populations)
getInternalInfectiousContacts() (in module simple_network_sim.network_of_populations)
getInternalInfectiousContactsInNode() (in module simple_network_sim.network_of_populations)
getInternalProgressionAllNodes() (in module simple_network_sim.network_of_populations)
getSusceptibles() (in module simple_network_sim.network_of_populations)
getTotalInAge() (in module simple_network_sim.network_of_populations)
getTotalInfectious() (in module simple_network_sim.network_of_populations)
getTotalSuscept() (in module simple_network_sim.network_of_populations)
getWeight() (in module simple_network_sim.network_of_populations)
git_sha() (simple_network_sim.common.RepoInfo property)
graph() (simple_network_sim.network_of_populations.NetworkOfPopulation property)
H
HIGH (simple_network_sim.common.IssueSeverity attribute)
I
infectionProb() (simple_network_sim.network_of_populations.NetworkOfPopulation property)
infectiousStates() (simple_network_sim.network_of_populations.NetworkOfPopulation property)
initialInfections() (simple_network_sim.network_of_populations.NetworkOfPopulation property)
initialState() (simple_network_sim.network_of_populations.NetworkOfPopulation property)
internalStateDiseaseUpdate() (in module simple_network_sim.network_of_populations)
is_dirty() (simple_network_sim.common.RepoInfo property)
issues() (simple_network_sim.sampleUseOfModel.Result property)
IssueSeverity (class in simple_network_sim.common)
L
Lazy (class in simple_network_sim.common)
locations() (in module tests.conftest)
log_issue() (in module simple_network_sim.common)
LOW (simple_network_sim.common.IssueSeverity attribute)
M
main() (in module simple_network_sim.sampleUseOfModel)
MEDIUM (simple_network_sim.common.IssueSeverity attribute)
mergeContacts() (in module simple_network_sim.network_of_populations)
MixingMatrix (class in simple_network_sim.loaders)
mixingMatrix() (simple_network_sim.network_of_populations.NetworkOfPopulation property)
MixingRow (class in simple_network_sim.loaders)
module
simple_network_sim
simple_network_sim.common
simple_network_sim.loaders
simple_network_sim.network_of_individuals
simple_network_sim.network_of_populations
simple_network_sim.sampleUseOfModel
tests
tests.conftest
tests.regression
tests.regression.test_network_of_populations
tests.regression.test_sampleUseOfModel
tests.unit
tests.unit.test_loaders
tests.unit.test_network_of_populations
tests.utils
movement() (simple_network_sim.loaders.Multiplier property)
movementMultipliers() (simple_network_sim.network_of_populations.NetworkOfPopulation property)
Multiplier (class in simple_network_sim.loaders)
N
NetworkOfPopulation (class in simple_network_sim.network_of_populations)
nodesToPandas() (in module simple_network_sim.network_of_populations)
O
output() (simple_network_sim.sampleUseOfModel.Result property)
P
progression() (simple_network_sim.network_of_populations.NetworkOfPopulation property)
R
randomlyInfectRegions() (in module simple_network_sim.network_of_populations)
readABCSMCParameters() (in module simple_network_sim.loaders)
readCompartmentRatesByAge() (in module simple_network_sim.loaders)
readHistoricalDeaths() (in module simple_network_sim.loaders)
readInfectionProbability() (in module simple_network_sim.loaders)
readInfectiousStates() (in module simple_network_sim.loaders)
readInitialInfections() (in module simple_network_sim.loaders)
readMovementMultipliers() (in module simple_network_sim.loaders)
readNodeAttributesJSON() (in module simple_network_sim.loaders)
readPopulationAgeStructured() (in module simple_network_sim.loaders)
readRandomSeed() (in module simple_network_sim.loaders)
readStartEndDate() (in module simple_network_sim.loaders)
readStochasticMode() (in module simple_network_sim.loaders)
readTrials() (in module simple_network_sim.loaders)
RepoInfo (class in simple_network_sim.common)
Result (class in simple_network_sim.sampleUseOfModel)
runSimulation() (in module simple_network_sim.sampleUseOfModel)
S
setup_logger() (in module simple_network_sim.sampleUseOfModel)
short_simulation_dates() (in module tests.conftest)
simple_network_sim
module
simple_network_sim.common
module
simple_network_sim.loaders
module
simple_network_sim.network_of_individuals
module
simple_network_sim.network_of_populations
module
simple_network_sim.sampleUseOfModel
module
startDate() (simple_network_sim.network_of_populations.NetworkOfPopulation property)
stochastic() (simple_network_sim.network_of_populations.NetworkOfPopulation property)
T
teardown_remove_data() (in module tests.conftest)
test_AgeRange() (in module tests.unit.test_loaders)
test_AgeRange_different_ranges() (in module tests.unit.test_loaders)
test_AgeRange_equal() (in module tests.unit.test_loaders)
test_AgeRange_hash() (in module tests.unit.test_loaders)
test_AgeRange_str() (in module tests.unit.test_loaders)
test_basic_simulation() (in module tests.regression.test_network_of_populations)
test_basic_simulation_100_runs() (in module tests.regression.test_network_of_populations)
test_basic_simulation_stochastic() (in module tests.regression.test_network_of_populations)
test_basic_simulation_with_dampening() (in module tests.regression.test_network_of_populations)
test_cli_run() (in module tests.regression.test_sampleUseOfModel)
test_genGraphFromContactFile() (in module tests.unit.test_loaders)
test_genGraphFromContactFile_missing_adjustmentt() (in module tests.unit.test_loaders)
test_genGraphFromContactFile_missing_weight() (in module tests.unit.test_loaders)
test_genGraphFromContactFile_negative_delta_adjustment() (in module tests.unit.test_loaders)
test_genGraphFromContactFile_negative_weight() (in module tests.unit.test_loaders)
test_MixingRow_iterate_access_key() (in module tests.unit.test_loaders)
test_MixingRow_iterate_over_keys() (in module tests.unit.test_loaders)
test_MixingRow_str() (in module tests.unit.test_loaders)
test_readABCSMCParameters() (in module tests.unit.test_loaders)
test_readABCSMCParameters_bad_input() (in module tests.unit.test_loaders)
test_readABCSMCParameters_empty() (in module tests.unit.test_loaders)
test_readCompartmentRatesByAge() (in module tests.unit.test_loaders)
test_readCompartmentRatesByAge_approximately_one() (in module tests.unit.test_loaders)
test_readHistoricalDeaths() (in module tests.unit.test_loaders)
test_readHistoricalDeaths_bad_input() (in module tests.unit.test_loaders)
test_readHistoricalDeaths_empty() (in module tests.unit.test_loaders)
test_readInfectionProbability() (in module tests.unit.test_loaders)
test_readInfectionProbability_empty() (in module tests.unit.test_loaders)
test_readInfectionProbability_invalid_prob() (in module tests.unit.test_loaders)
test_readInfectionProbability_invalid_seed() (in module tests.unit.test_loaders)
test_readInfectionProbability_invalid_time() (in module tests.unit.test_loaders)
test_readInfectiousStates() (in module tests.unit.test_loaders)
test_readInfectiousStates_empty() (in module tests.unit.test_loaders)
test_readInitialInfections() (in module tests.unit.test_loaders)
test_readInitialInfections_invalid_total() (in module tests.unit.test_loaders)
test_readMovementMultipliers() (in module tests.unit.test_loaders)
test_readMovementMultipliers_bad_contact_multipliers() (in module tests.unit.test_loaders)
test_readMovementMultipliers_bad_movement_multipliers() (in module tests.unit.test_loaders)
test_readMovementMultipliers_bad_times() (in module tests.unit.test_loaders)
test_readNodeAttributesJSON() (in module tests.unit.test_loaders)
test_readParametersAgeStructured_invalid_float() (in module tests.unit.test_loaders)
test_readParametersAgeStructured_less_than_100_percent() (in module tests.unit.test_loaders)
test_readParametersAgeStructured_more_than_100_percent() (in module tests.unit.test_loaders)
test_readPopulationAgeStructured() (in module tests.unit.test_loaders)
test_readPopulationAgeStructured_aggregate_ages() (in module tests.unit.test_loaders)
test_readPopulationAgeStructured_bad_total() (in module tests.unit.test_loaders)
test_readRandomSeed() (in module tests.unit.test_loaders)
test_readRandomSeed_bad_shape() (in module tests.unit.test_loaders)
test_readRandomSeed_none() (in module tests.unit.test_loaders)
test_readStartEndDate() (in module tests.unit.test_loaders)
test_readStartEndDate_bad_date_format() (in module tests.unit.test_loaders)
test_readStartEndDate_bad_shape() (in module tests.unit.test_loaders)
test_readStochasticMode() (in module tests.unit.test_loaders)
test_readStochasticMode_bad_shape() (in module tests.unit.test_loaders)
test_readStochasticMode_invalid_trials() (in module tests.unit.test_loaders)
test_readTrials() (in module tests.unit.test_loaders)
test_readTrials_bad_shape() (in module tests.unit.test_loaders)
test_readTrials_invalid_trials() (in module tests.unit.test_loaders)
test_sampleMixingMatrix() (in module tests.unit.test_loaders)
test_sampleMixingMatrix_iterate_keys() (in module tests.unit.test_loaders)
test_sampleMixingMatrix_iterate_keys_one_element() (in module tests.unit.test_loaders)
test_stochastic_cli_run() (in module tests.regression.test_sampleUseOfModel)
test_stochastic_seed_sequence() (in module tests.regression.test_sampleUseOfModel)
tests
module
tests.conftest
module
tests.regression
module
tests.regression.test_network_of_populations
module
tests.regression.test_sampleUseOfModel
module
tests.unit
module
tests.unit.test_loaders
module
tests.unit.test_network_of_populations
module
tests.utils
module
totalIndividuals() (in module simple_network_sim.network_of_populations)
trials() (simple_network_sim.network_of_populations.NetworkOfPopulation property)
U
uri() (simple_network_sim.common.RepoInfo property)
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