abcpy
v0.5.5
User Documentation
1. Installation
2. Getting Started
3. User Customization
4. Parallelization Backends
5. Post Analysis
Developer Documentation
Branching Scheme
Deploy a new Release
Reference
abcpy package
abcpy
Docs
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Index
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Index
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A
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B
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C
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D
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E
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F
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G
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H
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I
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J
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K
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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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T
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U
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V
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W
_
__add__() (abcpy.probabilisticmodels.ProbabilisticModel method)
__init__() (abcpy.acceptedparametersmanager.AcceptedParametersManager method)
(abcpy.approx_lhd.Approx_likelihood method)
(abcpy.approx_lhd.PenLogReg method)
(abcpy.approx_lhd.SynLiklihood method)
(abcpy.backends.base.BDS method)
(abcpy.backends.base.BDSDummy method)
(abcpy.backends.base.BackendDummy method)
(abcpy.backends.base.PDS method)
(abcpy.backends.base.PDSDummy method)
(abcpy.backends.spark.BDSSpark method)
(abcpy.backends.spark.BackendSpark method)
(abcpy.backends.spark.PDSSpark method)
(abcpy.continuousmodels.MultiStudentT method)
(abcpy.continuousmodels.MultivariateNormal method)
(abcpy.continuousmodels.Normal method)
(abcpy.continuousmodels.StudentT method)
(abcpy.continuousmodels.Uniform method)
(abcpy.discretemodels.Bernoulli method)
(abcpy.discretemodels.Binomial method)
(abcpy.discretemodels.DiscreteUniform method)
(abcpy.discretemodels.Poisson method)
(abcpy.distances.Distance method)
(abcpy.distances.Euclidean method)
(abcpy.distances.LogReg method)
(abcpy.distances.PenLogReg method)
(abcpy.inferences.ABCsubsim method)
(abcpy.inferences.APMCABC method)
(abcpy.inferences.PMC method)
(abcpy.inferences.PMCABC method)
(abcpy.inferences.RSMCABC method)
(abcpy.inferences.RejectionABC method)
(abcpy.inferences.SABC method)
(abcpy.inferences.SMCABC method)
(abcpy.modelselections.ModelSelections method)
(abcpy.modelselections.RandomForest method)
(abcpy.output.Journal method)
(abcpy.perturbationkernel.DefaultKernel method)
(abcpy.perturbationkernel.JointPerturbationKernel method)
(abcpy.perturbationkernel.MultivariateNormalKernel method)
(abcpy.perturbationkernel.MultivariateStudentTKernel method)
(abcpy.perturbationkernel.PerturbationKernel method)
(abcpy.perturbationkernel.RandomWalkKernel method)
(abcpy.probabilisticmodels.ExponentialModel method)
(abcpy.probabilisticmodels.Hyperparameter method)
(abcpy.probabilisticmodels.InputConnector method)
(abcpy.probabilisticmodels.ModelResultingFromOperation method)
(abcpy.probabilisticmodels.ProbabilisticModel method)
(abcpy.probabilisticmodels.RExponentialModel method)
(abcpy.statistics.Identity method)
(abcpy.statistics.Statistics method)
(abcpy.summaryselections.Semiautomatic method)
(abcpy.summaryselections.Summaryselections method)
__mul__() (abcpy.probabilisticmodels.ProbabilisticModel method)
__pow__() (abcpy.probabilisticmodels.ProbabilisticModel method)
__sub__() (abcpy.probabilisticmodels.ProbabilisticModel method)
__truediv__() (abcpy.probabilisticmodels.ProbabilisticModel method)
A
abcpy.acceptedparametersmanager (module)
abcpy.approx_lhd (module)
abcpy.backends.base (module)
abcpy.backends.spark (module)
abcpy.continuousmodels (module)
abcpy.discretemodels (module)
abcpy.distances (module)
abcpy.graphtools (module)
abcpy.inferences (module)
abcpy.modelselections (module)
abcpy.output (module)
abcpy.perturbationkernel (module)
abcpy.probabilisticmodels (module)
abcpy.statistics (module)
abcpy.summaryselections (module)
ABCsubsim (class in abcpy.inferences)
accepted_dist (abcpy.inferences.APMCABC attribute)
accepted_dist_bds (abcpy.inferences.RSMCABC attribute)
accepted_y_sim_bds (abcpy.inferences.SMCABC attribute)
AcceptedParametersManager (class in abcpy.acceptedparametersmanager)
add_distances() (abcpy.output.Journal method)
add_opt_values() (abcpy.output.Journal method)
add_parameters() (abcpy.output.Journal method)
add_user_parameters() (abcpy.output.Journal method)
add_weights() (abcpy.output.Journal method)
all_distances_bds (abcpy.inferences.SABC attribute)
all_models_fixed_values() (abcpy.probabilisticmodels.InputConnector method)
alpha (abcpy.inferences.APMCABC attribute)
(abcpy.inferences.RSMCABC attribute)
anneal_parameter (abcpy.inferences.ABCsubsim attribute)
APMCABC (class in abcpy.inferences)
Approx_likelihood (class in abcpy.approx_lhd)
B
backend (abcpy.inferences.ABCsubsim attribute)
(abcpy.inferences.APMCABC attribute)
(abcpy.inferences.InferenceMethod attribute)
(abcpy.inferences.PMC attribute)
(abcpy.inferences.PMCABC attribute)
(abcpy.inferences.RSMCABC attribute)
(abcpy.inferences.RejectionABC attribute)
(abcpy.inferences.SABC attribute)
(abcpy.inferences.SMCABC attribute)
Backend (class in abcpy.backends.base)
BackendDummy (class in abcpy.backends.base)
BackendSpark (class in abcpy.backends.spark)
BaseDiscrepancy (class in abcpy.inferences)
BaseLikelihood (class in abcpy.inferences)
BaseMethodsWithKernel (class in abcpy.inferences)
BDS (class in abcpy.backends.base)
BDSDummy (class in abcpy.backends.base)
BDSSpark (class in abcpy.backends.spark)
Bernoulli (class in abcpy.discretemodels)
Binomial (class in abcpy.discretemodels)
broadcast() (abcpy.acceptedparametersmanager.AcceptedParametersManager method)
(abcpy.backends.base.Backend method)
(abcpy.backends.base.BackendDummy method)
(abcpy.backends.spark.BackendSpark method)
C
calculate_and_store_pdf_if_needed() (abcpy.probabilisticmodels.ProbabilisticModel method)
calculate_cov() (abcpy.perturbationkernel.JointPerturbationKernel method)
(abcpy.perturbationkernel.MultivariateNormalKernel method)
(abcpy.perturbationkernel.MultivariateStudentTKernel method)
(abcpy.perturbationkernel.PerturbationKernel method)
(abcpy.perturbationkernel.RandomWalkKernel method)
chain_length (abcpy.inferences.ABCsubsim attribute)
collect() (abcpy.backends.base.Backend method)
(abcpy.backends.base.BackendDummy method)
(abcpy.backends.spark.BackendSpark method)
configuration (abcpy.output.Journal attribute)
Continuous (class in abcpy.probabilisticmodels)
ContinuousKernel (class in abcpy.perturbationkernel)
D
DefaultKernel (class in abcpy.perturbationkernel)
Discrete (class in abcpy.probabilisticmodels)
DiscreteKernel (class in abcpy.perturbationkernel)
DiscreteUniform (class in abcpy.discretemodels)
dist_max() (abcpy.distances.Distance method)
(abcpy.distances.Euclidean method)
(abcpy.distances.LogReg method)
(abcpy.distances.PenLogReg method)
distance (abcpy.inferences.ABCsubsim attribute)
(abcpy.inferences.APMCABC attribute)
(abcpy.inferences.BaseDiscrepancy attribute)
(abcpy.inferences.PMCABC attribute)
(abcpy.inferences.RSMCABC attribute)
(abcpy.inferences.RejectionABC attribute)
(abcpy.inferences.SABC attribute)
(abcpy.inferences.SMCABC attribute)
Distance (class in abcpy.distances)
distance() (abcpy.distances.Distance method)
(abcpy.distances.Euclidean method)
(abcpy.distances.LogReg method)
(abcpy.distances.PenLogReg method)
DivisionModel (class in abcpy.probabilisticmodels)
E
epsilon (abcpy.inferences.APMCABC attribute)
(abcpy.inferences.RejectionABC attribute)
(abcpy.inferences.SABC attribute)
(abcpy.inferences.SMCABC attribute)
Euclidean (class in abcpy.distances)
ExponentialModel (class in abcpy.probabilisticmodels)
F
flat_map() (abcpy.inferences.PMC method)
flush_stored_pdf() (abcpy.probabilisticmodels.ProbabilisticModel method)
forward_simulate() (abcpy.continuousmodels.MultiStudentT method)
(abcpy.continuousmodels.MultivariateNormal method)
(abcpy.continuousmodels.Normal method)
(abcpy.continuousmodels.StudentT method)
(abcpy.continuousmodels.Uniform method)
(abcpy.discretemodels.Bernoulli method)
(abcpy.discretemodels.Binomial method)
(abcpy.discretemodels.DiscreteUniform method)
(abcpy.discretemodels.Poisson method)
(abcpy.probabilisticmodels.DivisionModel method)
(abcpy.probabilisticmodels.ExponentialModel method)
(abcpy.probabilisticmodels.Hyperparameter method)
(abcpy.probabilisticmodels.ModelResultingFromOperation method)
(abcpy.probabilisticmodels.MultiplicationModel method)
(abcpy.probabilisticmodels.ProbabilisticModel method)
(abcpy.probabilisticmodels.RExponentialModel method)
(abcpy.probabilisticmodels.SubtractionModel method)
(abcpy.probabilisticmodels.SummationModel method)
from_list() (abcpy.probabilisticmodels.InputConnector method)
from_model() (abcpy.probabilisticmodels.InputConnector method)
from_number() (abcpy.probabilisticmodels.InputConnector method)
fromFile() (abcpy.output.Journal class method)
G
get_accepted_parameters_bds_values() (abcpy.acceptedparametersmanager.AcceptedParametersManager method)
get_correct_ordering() (abcpy.graphtools.GraphTools method)
get_distances() (abcpy.output.Journal method)
get_input_connector() (abcpy.probabilisticmodels.Hyperparameter method)
(abcpy.probabilisticmodels.ProbabilisticModel method)
get_input_dimension() (abcpy.probabilisticmodels.Hyperparameter method)
(abcpy.probabilisticmodels.ProbabilisticModel method)
get_input_models() (abcpy.probabilisticmodels.Hyperparameter method)
(abcpy.probabilisticmodels.ProbabilisticModel method)
get_input_values() (abcpy.probabilisticmodels.Hyperparameter method)
(abcpy.probabilisticmodels.ProbabilisticModel method)
get_mapping() (abcpy.acceptedparametersmanager.AcceptedParametersManager method)
get_model() (abcpy.probabilisticmodels.InputConnector method)
get_models() (abcpy.probabilisticmodels.InputConnector method)
get_output_dimension() (abcpy.continuousmodels.MultiStudentT method)
(abcpy.continuousmodels.MultivariateNormal method)
(abcpy.continuousmodels.Normal method)
(abcpy.continuousmodels.StudentT method)
(abcpy.continuousmodels.Uniform method)
(abcpy.discretemodels.Bernoulli method)
(abcpy.discretemodels.Binomial method)
(abcpy.discretemodels.DiscreteUniform method)
(abcpy.discretemodels.Poisson method)
(abcpy.probabilisticmodels.Hyperparameter method)
(abcpy.probabilisticmodels.ModelResultingFromOperation method)
(abcpy.probabilisticmodels.ProbabilisticModel method)
get_parameter_count() (abcpy.probabilisticmodels.InputConnector method)
get_parameters() (abcpy.graphtools.GraphTools method)
(abcpy.output.Journal method)
get_stored_output_values() (abcpy.probabilisticmodels.ProbabilisticModel method)
get_stored_pdf() (abcpy.probabilisticmodels.ProbabilisticModel method)
get_values() (abcpy.probabilisticmodels.InputConnector method)
get_weights() (abcpy.output.Journal method)
GraphTools (class in abcpy.graphtools)
H
Hyperparameter (class in abcpy.probabilisticmodels)
I
Identity (class in abcpy.statistics)
InferenceMethod (class in abcpy.inferences)
InputConnector (class in abcpy.probabilisticmodels)
J
JointPerturbationKernel (class in abcpy.perturbationkernel)
Journal (class in abcpy.output)
K
kernel (abcpy.inferences.ABCsubsim attribute)
(abcpy.inferences.APMCABC attribute)
(abcpy.inferences.BaseMethodsWithKernel attribute)
(abcpy.inferences.PMC attribute)
(abcpy.inferences.PMCABC attribute)
(abcpy.inferences.RSMCABC attribute)
(abcpy.inferences.SABC attribute)
(abcpy.inferences.SMCABC attribute)
L
likelihood() (abcpy.approx_lhd.Approx_likelihood method)
(abcpy.approx_lhd.PenLogReg method)
(abcpy.approx_lhd.SynLiklihood method)
likfun (abcpy.inferences.BaseLikelihood attribute)
(abcpy.inferences.PMC attribute)
LogReg (class in abcpy.distances)
M
map() (abcpy.backends.base.Backend method)
(abcpy.backends.base.BackendDummy method)
(abcpy.backends.spark.BackendSpark method)
model (abcpy.inferences.ABCsubsim attribute)
(abcpy.inferences.APMCABC attribute)
(abcpy.inferences.InferenceMethod attribute)
(abcpy.inferences.PMC attribute)
(abcpy.inferences.PMCABC attribute)
(abcpy.inferences.RSMCABC attribute)
(abcpy.inferences.RejectionABC attribute)
(abcpy.inferences.SABC attribute)
(abcpy.inferences.SMCABC attribute)
ModelResultingFromOperation (class in abcpy.probabilisticmodels)
ModelSelections (class in abcpy.modelselections)
MultiplicationModel (class in abcpy.probabilisticmodels)
MultiStudentT (class in abcpy.continuousmodels)
MultivariateNormal (class in abcpy.continuousmodels)
MultivariateNormalKernel (class in abcpy.perturbationkernel)
MultivariateStudentTKernel (class in abcpy.perturbationkernel)
N
n_samples (abcpy.inferences.ABCsubsim attribute)
(abcpy.inferences.APMCABC attribute)
(abcpy.inferences.InferenceMethod attribute)
(abcpy.inferences.PMC attribute)
(abcpy.inferences.PMCABC attribute)
(abcpy.inferences.RSMCABC attribute)
(abcpy.inferences.RejectionABC attribute)
(abcpy.inferences.SABC attribute)
(abcpy.inferences.SMCABC attribute)
n_samples_per_param (abcpy.inferences.ABCsubsim attribute)
(abcpy.inferences.APMCABC attribute)
(abcpy.inferences.InferenceMethod attribute)
(abcpy.inferences.PMC attribute)
(abcpy.inferences.PMCABC attribute)
(abcpy.inferences.RSMCABC attribute)
(abcpy.inferences.RejectionABC attribute)
(abcpy.inferences.SABC attribute)
(abcpy.inferences.SMCABC attribute)
nested_execution() (abcpy.backends.base.NestedParallelizationController method)
NestedParallelizationController (class in abcpy.backends.base)
Normal (class in abcpy.continuousmodels)
O
opt_value (abcpy.output.Journal attribute)
P
parallelize() (abcpy.backends.base.Backend method)
(abcpy.backends.base.BackendDummy method)
(abcpy.backends.spark.BackendSpark method)
parameters (abcpy.output.Journal attribute)
pdf() (abcpy.continuousmodels.MultiStudentT method)
(abcpy.continuousmodels.MultivariateNormal method)
(abcpy.continuousmodels.Normal method)
(abcpy.continuousmodels.StudentT method)
(abcpy.continuousmodels.Uniform method)
(abcpy.perturbationkernel.ContinuousKernel method)
(abcpy.perturbationkernel.JointPerturbationKernel method)
(abcpy.perturbationkernel.MultivariateNormalKernel method)
(abcpy.perturbationkernel.MultivariateStudentTKernel method)
(abcpy.perturbationkernel.PerturbationKernel method)
(abcpy.probabilisticmodels.Continuous method)
(abcpy.probabilisticmodels.Hyperparameter method)
(abcpy.probabilisticmodels.ModelResultingFromOperation method)
(abcpy.probabilisticmodels.ProbabilisticModel method)
pdf_of_prior() (abcpy.graphtools.GraphTools method)
PDS (class in abcpy.backends.base)
PDSDummy (class in abcpy.backends.base)
PDSSpark (class in abcpy.backends.spark)
PenLogReg (class in abcpy.approx_lhd)
(class in abcpy.distances)
perturb() (abcpy.inferences.BaseMethodsWithKernel method)
PerturbationKernel (class in abcpy.perturbationkernel)
PMC (class in abcpy.inferences)
PMCABC (class in abcpy.inferences)
pmf() (abcpy.discretemodels.Bernoulli method)
(abcpy.discretemodels.Binomial method)
(abcpy.discretemodels.DiscreteUniform method)
(abcpy.discretemodels.Poisson method)
(abcpy.perturbationkernel.DiscreteKernel method)
(abcpy.perturbationkernel.RandomWalkKernel method)
(abcpy.probabilisticmodels.Discrete method)
Poisson (class in abcpy.discretemodels)
posterior_cov() (abcpy.output.Journal method)
posterior_histogram() (abcpy.output.Journal method)
posterior_mean() (abcpy.output.Journal method)
posterior_probability() (abcpy.modelselections.ModelSelections method)
(abcpy.modelselections.RandomForest method)
ProbabilisticModel (class in abcpy.probabilisticmodels)
R
R (abcpy.inferences.RSMCABC attribute)
RandomForest (class in abcpy.modelselections)
RandomWalkKernel (class in abcpy.perturbationkernel)
RejectionABC (class in abcpy.inferences)
RExponentialModel (class in abcpy.probabilisticmodels)
rng (abcpy.inferences.ABCsubsim attribute)
(abcpy.inferences.APMCABC attribute)
(abcpy.inferences.InferenceMethod attribute)
(abcpy.inferences.PMC attribute)
(abcpy.inferences.PMCABC attribute)
(abcpy.inferences.RSMCABC attribute)
(abcpy.inferences.RejectionABC attribute)
(abcpy.inferences.SABC attribute)
(abcpy.inferences.SMCABC attribute)
RSMCABC (class in abcpy.inferences)
run_nested() (abcpy.backends.base.NestedParallelizationController method)
S
SABC (class in abcpy.inferences)
sample() (abcpy.inferences.ABCsubsim method)
(abcpy.inferences.APMCABC method)
(abcpy.inferences.InferenceMethod method)
(abcpy.inferences.PMC method)
(abcpy.inferences.PMCABC method)
(abcpy.inferences.RSMCABC method)
(abcpy.inferences.RejectionABC method)
(abcpy.inferences.SABC method)
(abcpy.inferences.SMCABC method)
sample_from_input_models() (abcpy.probabilisticmodels.ModelResultingFromOperation method)
sample_from_prior() (abcpy.graphtools.GraphTools method)
save() (abcpy.output.Journal method)
select_model() (abcpy.modelselections.ModelSelections method)
(abcpy.modelselections.RandomForest method)
Semiautomatic (class in abcpy.summaryselections)
set() (abcpy.probabilisticmodels.InputConnector method)
set_output_values() (abcpy.probabilisticmodels.Hyperparameter method)
(abcpy.probabilisticmodels.ProbabilisticModel method)
set_parameters() (abcpy.graphtools.GraphTools method)
simple_map() (abcpy.inferences.PMC method)
simulate() (abcpy.graphtools.GraphTools method)
SMCABC (class in abcpy.inferences)
smooth_distances_bds (abcpy.inferences.SABC attribute)
Statistics (class in abcpy.statistics)
statistics() (abcpy.statistics.Identity method)
(abcpy.statistics.Statistics method)
StudentT (class in abcpy.continuousmodels)
SubtractionModel (class in abcpy.probabilisticmodels)
Summaryselections (class in abcpy.summaryselections)
SummationModel (class in abcpy.probabilisticmodels)
SynLiklihood (class in abcpy.approx_lhd)
T
transformation() (abcpy.summaryselections.Semiautomatic method)
(abcpy.summaryselections.Summaryselections method)
U
Uniform (class in abcpy.continuousmodels)
update() (abcpy.perturbationkernel.JointPerturbationKernel method)
(abcpy.perturbationkernel.MultivariateNormalKernel method)
(abcpy.perturbationkernel.MultivariateStudentTKernel method)
(abcpy.perturbationkernel.PerturbationKernel method)
(abcpy.perturbationkernel.RandomWalkKernel method)
update_broadcast() (abcpy.acceptedparametersmanager.AcceptedParametersManager method)
update_kernel_values() (abcpy.acceptedparametersmanager.AcceptedParametersManager method)
V
value() (abcpy.backends.base.BDS method)
(abcpy.backends.base.BDSDummy method)
(abcpy.backends.spark.BDSSpark method)
W
weights (abcpy.output.Journal attribute)