BayesBay
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Standard API — Overview
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Prior
Parameterization
Discretization
States
Data and Likelihood
Samplers
Perturbations
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Low-Level API — Overview
Inference
Examples
Polynomial Fitting
Gaussian Mixture Model
Partition Modeling
Surface-Wave Dispersion
Tomography
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BayesBay
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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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
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V
_
__call__() (bayesbay.perturbations.BirthPerturbation method)
(bayesbay.perturbations.DeathPerturbation method)
(bayesbay.perturbations.NoisePerturbation method)
(bayesbay.perturbations.ParamPerturbation method)
(bayesbay.perturbations.Perturbation method)
A
add_hyper_params() (bayesbay.discretization.Discretization method)
(bayesbay.discretization.Voronoi method)
(bayesbay.discretization.Voronoi1D method)
(bayesbay.discretization.Voronoi2D method)
(bayesbay.prior.CustomPrior method)
(bayesbay.prior.GaussianPrior method)
(bayesbay.prior.LaplacePrior method)
(bayesbay.prior.Prior method)
(bayesbay.prior.UniformPrior method)
add_on_begin_iteration() (bayesbay.samplers.ParallelTempering method)
(bayesbay.samplers.Sampler method)
(bayesbay.samplers.SimulatedAnnealing method)
(bayesbay.samplers.VanillaSampler method)
add_on_end_advance_chain() (bayesbay.samplers.ParallelTempering method)
(bayesbay.samplers.Sampler method)
(bayesbay.samplers.SimulatedAnnealing method)
(bayesbay.samplers.VanillaSampler method)
add_on_end_iteration() (bayesbay.samplers.ParallelTempering method)
(bayesbay.samplers.Sampler method)
(bayesbay.samplers.SimulatedAnnealing method)
(bayesbay.samplers.VanillaSampler method)
add_on_initialize() (bayesbay.samplers.ParallelTempering method)
(bayesbay.samplers.Sampler method)
(bayesbay.samplers.SimulatedAnnealing method)
(bayesbay.samplers.VanillaSampler method)
add_targets() (bayesbay.LogLikelihood method)
add_targets_observer() (bayesbay.LogLikelihood method)
advance_chain() (bayesbay.BaseMarkovChain method)
(bayesbay.MarkovChain method)
(bayesbay.samplers.ParallelTempering method)
(bayesbay.samplers.Sampler method)
(bayesbay.samplers.SimulatedAnnealing method)
(bayesbay.samplers.VanillaSampler method)
B
BaseBayesianInversion (class in bayesbay)
BaseMarkovChain (class in bayesbay)
bayesbay.parameterization
module
BayesianInversion (class in bayesbay)
begin_iteration() (bayesbay.samplers.ParallelTempering method)
(bayesbay.samplers.Sampler method)
(bayesbay.samplers.SimulatedAnnealing method)
(bayesbay.samplers.VanillaSampler method)
birth() (bayesbay.discretization.Discretization method)
(bayesbay.discretization.Voronoi method)
(bayesbay.discretization.Voronoi1D method)
(bayesbay.discretization.Voronoi2D method)
(bayesbay.parameterization.ParameterSpace method)
BirthPerturbation (class in bayesbay.perturbations)
C
cache (bayesbay.ParameterSpaceState attribute)
(bayesbay.State attribute)
chains (bayesbay.BaseBayesianInversion attribute)
(bayesbay.BayesianInversion attribute)
(bayesbay.samplers.ParallelTempering attribute)
(bayesbay.samplers.Sampler attribute)
(bayesbay.samplers.SimulatedAnnealing attribute)
(bayesbay.samplers.VanillaSampler attribute)
compute_cell_extents() (bayesbay.discretization.Voronoi1D static method)
copy() (bayesbay.DataNoiseState method)
(bayesbay.ParameterSpaceState method)
(bayesbay.State method)
correlation (bayesbay.DataNoiseState attribute)
count() (bayesbay.DataNoiseState method)
current_state (bayesbay.BaseMarkovChain attribute)
(bayesbay.MarkovChain attribute)
CustomPrior (class in bayesbay.prior)
D
DataNoiseState (class in bayesbay)
death() (bayesbay.discretization.Discretization method)
(bayesbay.discretization.Voronoi method)
(bayesbay.discretization.Voronoi1D method)
(bayesbay.discretization.Voronoi2D method)
(bayesbay.parameterization.ParameterSpace method)
DeathPerturbation (class in bayesbay.perturbations)
Discretization (class in bayesbay.discretization)
E
end_advance_chain() (bayesbay.samplers.ParallelTempering method)
(bayesbay.samplers.Sampler method)
(bayesbay.samplers.SimulatedAnnealing method)
(bayesbay.samplers.VanillaSampler method)
end_iteration() (bayesbay.samplers.ParallelTempering method)
(bayesbay.samplers.Sampler method)
(bayesbay.samplers.SimulatedAnnealing method)
(bayesbay.samplers.VanillaSampler method)
extra_storage (bayesbay.State attribute)
F
fwd_functions (bayesbay.LogLikelihood attribute)
G
GaussianPrior (class in bayesbay.prior)
get_delta() (bayesbay.prior.UniformPrior method)
get_hyper_param() (bayesbay.discretization.Discretization method)
(bayesbay.discretization.Voronoi method)
(bayesbay.discretization.Voronoi1D method)
(bayesbay.discretization.Voronoi2D method)
(bayesbay.prior.CustomPrior method)
(bayesbay.prior.GaussianPrior method)
(bayesbay.prior.LaplacePrior method)
(bayesbay.prior.Prior method)
(bayesbay.prior.UniformPrior method)
get_mean() (bayesbay.prior.GaussianPrior method)
(bayesbay.prior.LaplacePrior method)
get_param_values() (bayesbay.ParameterSpaceState method)
(bayesbay.State method)
get_perturb_std() (bayesbay.discretization.Discretization method)
(bayesbay.discretization.Voronoi method)
(bayesbay.discretization.Voronoi1D method)
(bayesbay.discretization.Voronoi2D method)
(bayesbay.prior.CustomPrior method)
(bayesbay.prior.GaussianPrior method)
(bayesbay.prior.LaplacePrior method)
(bayesbay.prior.Prior method)
(bayesbay.prior.UniformPrior method)
get_perturb_std_birth() (bayesbay.discretization.Discretization method)
(bayesbay.discretization.Voronoi method)
(bayesbay.discretization.Voronoi1D method)
(bayesbay.discretization.Voronoi2D method)
(bayesbay.prior.CustomPrior method)
(bayesbay.prior.GaussianPrior method)
(bayesbay.prior.LaplacePrior method)
(bayesbay.prior.Prior method)
(bayesbay.prior.UniformPrior method)
get_results() (bayesbay.BaseBayesianInversion method)
(bayesbay.BayesianInversion method)
get_results_from_chains() (bayesbay.BaseBayesianInversion static method)
(bayesbay.BayesianInversion static method)
get_scale() (bayesbay.prior.LaplacePrior method)
get_std() (bayesbay.prior.GaussianPrior method)
get_tessellation_statistics() (bayesbay.discretization.Voronoi1D static method)
(bayesbay.discretization.Voronoi2D static method)
get_vmin_vmax() (bayesbay.prior.UniformPrior method)
H
has_hyper_param() (bayesbay.discretization.Discretization method)
(bayesbay.discretization.Voronoi method)
(bayesbay.discretization.Voronoi1D method)
(bayesbay.discretization.Voronoi2D method)
(bayesbay.prior.CustomPrior method)
(bayesbay.prior.GaussianPrior method)
(bayesbay.prior.LaplacePrior method)
(bayesbay.prior.Prior method)
(bayesbay.prior.UniformPrior method)
I
index() (bayesbay.DataNoiseState method)
initialize() (bayesbay.discretization.Discretization method)
(bayesbay.discretization.Voronoi method)
(bayesbay.discretization.Voronoi1D method)
(bayesbay.discretization.Voronoi2D method)
(bayesbay.LogLikelihood method)
(bayesbay.parameterization.Parameterization method)
(bayesbay.parameterization.ParameterSpace method)
(bayesbay.prior.CustomPrior method)
(bayesbay.prior.GaussianPrior method)
(bayesbay.prior.LaplacePrior method)
(bayesbay.prior.Prior method)
(bayesbay.prior.UniformPrior method)
(bayesbay.samplers.ParallelTempering method)
(bayesbay.samplers.Sampler method)
(bayesbay.samplers.SimulatedAnnealing method)
(bayesbay.samplers.VanillaSampler method)
(bayesbay.Target method)
interpolate_tessellation() (bayesbay.discretization.Voronoi1D static method)
(bayesbay.discretization.Voronoi2D static method)
inverse_covariance_times_vector() (bayesbay.Target method)
is_hierarchical (bayesbay.Target attribute)
is_leaf (bayesbay.discretization.Discretization attribute)
(bayesbay.discretization.Voronoi attribute)
(bayesbay.discretization.Voronoi1D attribute)
(bayesbay.discretization.Voronoi2D attribute)
(bayesbay.parameterization.ParameterSpace attribute)
items() (bayesbay.State method)
ith_iteration (bayesbay.BaseMarkovChain attribute)
(bayesbay.MarkovChain attribute)
L
LaplacePrior (class in bayesbay.prior)
load_from_cache() (bayesbay.ParameterSpaceState method)
(bayesbay.State method)
load_from_extra_storage() (bayesbay.State method)
log_determinant_covariance() (bayesbay.Target method)
log_likelihood_ratio() (bayesbay.LogLikelihood method)
log_prior() (bayesbay.discretization.Discretization method)
(bayesbay.discretization.Voronoi method)
(bayesbay.discretization.Voronoi1D method)
(bayesbay.discretization.Voronoi2D method)
(bayesbay.parameterization.ParameterSpace method)
(bayesbay.prior.CustomPrior method)
(bayesbay.prior.GaussianPrior method)
(bayesbay.prior.LaplacePrior method)
(bayesbay.prior.Prior method)
(bayesbay.prior.UniformPrior method)
log_prob_initialize_discretization() (bayesbay.discretization.Discretization method)
(bayesbay.discretization.Voronoi method)
(bayesbay.discretization.Voronoi1D method)
(bayesbay.discretization.Voronoi2D method)
LogLikelihood (class in bayesbay)
M
MarkovChain (class in bayesbay)
module
bayesbay.parameterization
N
n_dimensions (bayesbay.ParameterSpaceState attribute)
name (bayesbay.discretization.Discretization attribute)
(bayesbay.discretization.Voronoi attribute)
(bayesbay.discretization.Voronoi1D attribute)
(bayesbay.discretization.Voronoi2D attribute)
(bayesbay.parameterization.ParameterSpace attribute)
(bayesbay.prior.CustomPrior attribute)
(bayesbay.prior.GaussianPrior attribute)
(bayesbay.prior.LaplacePrior attribute)
(bayesbay.prior.Prior attribute)
(bayesbay.prior.UniformPrior attribute)
(bayesbay.Target attribute)
nearest_neighbour() (bayesbay.discretization.Discretization method)
(bayesbay.discretization.Voronoi method)
(bayesbay.discretization.Voronoi1D method)
(bayesbay.discretization.Voronoi2D method)
NoisePerturbation (class in bayesbay.perturbations)
O
on_begin_iteration() (bayesbay.samplers.ParallelTempering method)
(bayesbay.samplers.Sampler method)
(bayesbay.samplers.SimulatedAnnealing method)
(bayesbay.samplers.VanillaSampler method)
on_end_advance_chain() (bayesbay.samplers.ParallelTempering method)
(bayesbay.samplers.Sampler method)
(bayesbay.samplers.SimulatedAnnealing method)
(bayesbay.samplers.VanillaSampler method)
on_end_iteration() (bayesbay.samplers.ParallelTempering method)
(bayesbay.samplers.Sampler method)
(bayesbay.samplers.SimulatedAnnealing method)
(bayesbay.samplers.VanillaSampler method)
on_initialize() (bayesbay.samplers.ParallelTempering method)
(bayesbay.samplers.Sampler method)
(bayesbay.samplers.SimulatedAnnealing method)
(bayesbay.samplers.VanillaSampler method)
P
parallel_config (bayesbay.samplers.ParallelTempering attribute)
(bayesbay.samplers.Sampler attribute)
(bayesbay.samplers.SimulatedAnnealing attribute)
(bayesbay.samplers.VanillaSampler attribute)
ParallelTempering (class in bayesbay.samplers)
param_values (bayesbay.ParameterSpaceState attribute)
(bayesbay.State attribute)
Parameterization (class in bayesbay.parameterization)
parameters (bayesbay.discretization.Discretization attribute)
(bayesbay.discretization.Voronoi attribute)
(bayesbay.discretization.Voronoi1D attribute)
(bayesbay.discretization.Voronoi2D attribute)
(bayesbay.parameterization.ParameterSpace attribute)
ParameterSpace (class in bayesbay.parameterization)
ParameterSpaceState (class in bayesbay)
ParamPerturbation (class in bayesbay.perturbations)
perturb() (bayesbay.perturbations.BirthPerturbation method)
(bayesbay.perturbations.DeathPerturbation method)
(bayesbay.perturbations.NoisePerturbation method)
(bayesbay.perturbations.ParamPerturbation method)
(bayesbay.perturbations.Perturbation method)
perturb_param_space_state() (bayesbay.perturbations.BirthPerturbation method)
(bayesbay.perturbations.DeathPerturbation method)
(bayesbay.perturbations.ParamPerturbation method)
perturb_value() (bayesbay.discretization.Discretization method)
(bayesbay.discretization.Voronoi method)
(bayesbay.discretization.Voronoi1D method)
(bayesbay.discretization.Voronoi2D method)
(bayesbay.prior.CustomPrior method)
(bayesbay.prior.GaussianPrior method)
(bayesbay.prior.LaplacePrior method)
(bayesbay.prior.Prior method)
(bayesbay.prior.UniformPrior method)
Perturbation (class in bayesbay.perturbations)
perturbation_functions (bayesbay.discretization.Discretization attribute)
(bayesbay.discretization.Voronoi attribute)
(bayesbay.discretization.Voronoi1D attribute)
(bayesbay.discretization.Voronoi2D attribute)
(bayesbay.LogLikelihood attribute)
(bayesbay.parameterization.Parameterization attribute)
(bayesbay.parameterization.ParameterSpace attribute)
perturbation_weights (bayesbay.discretization.Discretization attribute)
(bayesbay.discretization.Voronoi attribute)
(bayesbay.discretization.Voronoi1D attribute)
(bayesbay.discretization.Voronoi2D attribute)
(bayesbay.LogLikelihood attribute)
(bayesbay.parameterization.Parameterization attribute)
(bayesbay.parameterization.ParameterSpace attribute)
plot_interface_hist() (bayesbay.discretization.Voronoi1D static method)
plot_tessellation() (bayesbay.discretization.Voronoi1D static method)
(bayesbay.discretization.Voronoi2D static method)
plot_tessellation_density() (bayesbay.discretization.Voronoi1D static method)
plot_tessellation_statistics() (bayesbay.discretization.Voronoi1D static method)
plot_tessellations() (bayesbay.discretization.Voronoi1D static method)
print_statistics() (bayesbay.BaseMarkovChain method)
(bayesbay.MarkovChain method)
Prior (class in bayesbay.prior)
R
run() (bayesbay.BaseBayesianInversion method)
(bayesbay.BayesianInversion method)
(bayesbay.samplers.ParallelTempering method)
(bayesbay.samplers.Sampler method)
(bayesbay.samplers.SimulatedAnnealing method)
(bayesbay.samplers.VanillaSampler method)
S
sample() (bayesbay.discretization.Discretization method)
(bayesbay.discretization.Voronoi method)
(bayesbay.discretization.Voronoi1D method)
(bayesbay.discretization.Voronoi2D method)
(bayesbay.parameterization.ParameterSpace method)
(bayesbay.prior.CustomPrior method)
(bayesbay.prior.GaussianPrior method)
(bayesbay.prior.LaplacePrior method)
(bayesbay.prior.Prior method)
(bayesbay.prior.UniformPrior method)
sample_discretization() (bayesbay.discretization.Discretization method)
(bayesbay.discretization.Voronoi method)
(bayesbay.discretization.Voronoi1D method)
(bayesbay.discretization.Voronoi2D method)
sample_site() (bayesbay.discretization.Voronoi method)
(bayesbay.discretization.Voronoi1D method)
(bayesbay.discretization.Voronoi2D method)
Sampler (class in bayesbay.samplers)
save_to_cache() (bayesbay.ParameterSpaceState method)
(bayesbay.State method)
save_to_extra_storage() (bayesbay.State method)
saved_in_cache() (bayesbay.ParameterSpaceState method)
(bayesbay.State method)
saved_in_extra_storage() (bayesbay.State method)
saved_states (bayesbay.BaseMarkovChain attribute)
(bayesbay.MarkovChain attribute)
set_custom_initialize() (bayesbay.discretization.Discretization method)
(bayesbay.discretization.Voronoi method)
(bayesbay.discretization.Voronoi1D method)
(bayesbay.discretization.Voronoi2D method)
(bayesbay.prior.CustomPrior method)
(bayesbay.prior.GaussianPrior method)
(bayesbay.prior.LaplacePrior method)
(bayesbay.prior.Prior method)
(bayesbay.prior.UniformPrior method)
set_param_values() (bayesbay.ParameterSpaceState method)
(bayesbay.State method)
set_perturbation_funcs() (bayesbay.BaseBayesianInversion method)
(bayesbay.BaseMarkovChain method)
(bayesbay.BayesianInversion method)
(bayesbay.MarkovChain method)
SimulatedAnnealing (class in bayesbay.samplers)
State (class in bayesbay)
statistics (bayesbay.BaseMarkovChain attribute)
(bayesbay.MarkovChain attribute)
std (bayesbay.DataNoiseState attribute)
T
Target (class in bayesbay)
targets (bayesbay.LogLikelihood attribute)
temperature (bayesbay.BaseMarkovChain attribute)
(bayesbay.MarkovChain attribute)
(bayesbay.State attribute)
todict() (bayesbay.DataNoiseState method)
(bayesbay.ParameterSpaceState method)
trans_d (bayesbay.discretization.Discretization attribute)
(bayesbay.discretization.Voronoi attribute)
(bayesbay.discretization.Voronoi1D attribute)
(bayesbay.discretization.Voronoi2D attribute)
(bayesbay.parameterization.ParameterSpace attribute)
type (bayesbay.perturbations.BirthPerturbation attribute)
(bayesbay.perturbations.DeathPerturbation attribute)
(bayesbay.perturbations.NoisePerturbation attribute)
(bayesbay.perturbations.ParamPerturbation attribute)
(bayesbay.perturbations.Perturbation attribute)
U
UniformPrior (class in bayesbay.prior)
update_log_likelihood_targets() (bayesbay.BayesianInversion method)
update_targets() (bayesbay.BaseMarkovChain method)
(bayesbay.MarkovChain method)
V
VanillaSampler (class in bayesbay.samplers)
Voronoi (class in bayesbay.discretization)
Voronoi1D (class in bayesbay.discretization)
Voronoi2D (class in bayesbay.discretization)
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