pyemma.msm.BayesianHMSM
=======================

.. currentmodule:: pyemma.msm

.. autoclass:: BayesianHMSM

   
   .. automethod:: __init__

   
   .. rubric:: Methods

   .. autosummary::
   
      ~BayesianHMSM._Loggable__create_logger
      ~BayesianHMSM._ProgressReporterMixin__check_stage_registered
      ~BayesianHMSM._SerializableMixIn__interpolate
      ~BayesianHMSM.__delattr__
      ~BayesianHMSM.__dir__
      ~BayesianHMSM.__eq__
      ~BayesianHMSM.__format__
      ~BayesianHMSM.__ge__
      ~BayesianHMSM.__getattribute__
      ~BayesianHMSM.__getstate__
      ~BayesianHMSM.__gt__
      ~BayesianHMSM.__init__
      ~BayesianHMSM.__init_subclass__
      ~BayesianHMSM.__le__
      ~BayesianHMSM.__lt__
      ~BayesianHMSM.__my_getstate__
      ~BayesianHMSM.__my_setstate__
      ~BayesianHMSM.__ne__
      ~BayesianHMSM.__new__
      ~BayesianHMSM.__reduce__
      ~BayesianHMSM.__reduce_ex__
      ~BayesianHMSM.__repr__
      ~BayesianHMSM.__setattr__
      ~BayesianHMSM.__setstate__
      ~BayesianHMSM.__sizeof__
      ~BayesianHMSM.__str__
      ~BayesianHMSM.__subclasshook__
      ~BayesianHMSM._assert_in_active
      ~BayesianHMSM._assert_metastable
      ~BayesianHMSM._check_estimated
      ~BayesianHMSM._check_samples_available
      ~BayesianHMSM._cleanup_logger
      ~BayesianHMSM._committor_backward
      ~BayesianHMSM._committor_forward
      ~BayesianHMSM._compute_eigendecomposition
      ~BayesianHMSM._compute_eigenvalues
      ~BayesianHMSM._ensure_eigendecomposition
      ~BayesianHMSM._ensure_eigenvalues
      ~BayesianHMSM._estimate
      ~BayesianHMSM._get_classes_to_inspect
      ~BayesianHMSM._get_interpolation_map
      ~BayesianHMSM._get_model_param_names
      ~BayesianHMSM._get_param_names
      ~BayesianHMSM._get_private_field
      ~BayesianHMSM._get_serialize_fields
      ~BayesianHMSM._get_state_of_serializeable_fields
      ~BayesianHMSM._get_version
      ~BayesianHMSM._get_version_for_class_from_state
      ~BayesianHMSM._logger_is_active
      ~BayesianHMSM._mfpt
      ~BayesianHMSM._progress_context
      ~BayesianHMSM._progress_force_finish
      ~BayesianHMSM._progress_register
      ~BayesianHMSM._progress_set_description
      ~BayesianHMSM._progress_update
      ~BayesianHMSM._set_state_from_serializeable_fields_and_state
      ~BayesianHMSM.cktest
      ~BayesianHMSM.committor_backward
      ~BayesianHMSM.committor_forward
      ~BayesianHMSM.correlation
      ~BayesianHMSM.eigenvalues
      ~BayesianHMSM.eigenvectors_left
      ~BayesianHMSM.eigenvectors_right
      ~BayesianHMSM.estimate
      ~BayesianHMSM.expectation
      ~BayesianHMSM.fingerprint_correlation
      ~BayesianHMSM.fingerprint_relaxation
      ~BayesianHMSM.fit
      ~BayesianHMSM.get_model_params
      ~BayesianHMSM.get_params
      ~BayesianHMSM.load
      ~BayesianHMSM.mfpt
      ~BayesianHMSM.pcca
      ~BayesianHMSM.propagate
      ~BayesianHMSM.relaxation
      ~BayesianHMSM.sample_by_observation_probabilities
      ~BayesianHMSM.sample_conf
      ~BayesianHMSM.sample_f
      ~BayesianHMSM.sample_mean
      ~BayesianHMSM.sample_std
      ~BayesianHMSM.save
      ~BayesianHMSM.set_model_params
      ~BayesianHMSM.set_params
      ~BayesianHMSM.simulate
      ~BayesianHMSM.submodel
      ~BayesianHMSM.submodel_disconnect
      ~BayesianHMSM.submodel_largest
      ~BayesianHMSM.submodel_populous
      ~BayesianHMSM.timescales
      ~BayesianHMSM.trajectory_weights
      ~BayesianHMSM.transition_matrix_obs
      ~BayesianHMSM.update_model_params
   
   

   
   
   .. rubric:: Attributes

   .. autosummary::
   
      ~BayesianHMSM.P
      ~BayesianHMSM._BayesianHMSM__serialize_fields
      ~BayesianHMSM._BayesianHMSM__serialize_version
      ~BayesianHMSM._Estimator__serialize_fields
      ~BayesianHMSM._HMSM__serialize_version
      ~BayesianHMSM._Loggable__ids
      ~BayesianHMSM._Loggable__refs
      ~BayesianHMSM._MSM__serialize_fields
      ~BayesianHMSM._MSM__serialize_version
      ~BayesianHMSM._MaximumLikelihoodHMSM__serialize_fields
      ~BayesianHMSM._MaximumLikelihoodHMSM__serialize_version
      ~BayesianHMSM._SampledHMSM__serialize_version
      ~BayesianHMSM._SerializableMixIn__serialize_fields
      ~BayesianHMSM._SerializableMixIn__serialize_modifications_map
      ~BayesianHMSM._SerializableMixIn__serialize_version
      ~BayesianHMSM.__dict__
      ~BayesianHMSM.__doc__
      ~BayesianHMSM.__hash__
      ~BayesianHMSM.__module__
      ~BayesianHMSM.__weakref__
      ~BayesianHMSM._estimated
      ~BayesianHMSM._loglevel_CRITICAL
      ~BayesianHMSM._loglevel_DEBUG
      ~BayesianHMSM._loglevel_ERROR
      ~BayesianHMSM._loglevel_INFO
      ~BayesianHMSM._loglevel_WARN
      ~BayesianHMSM._pg_threshold
      ~BayesianHMSM._prog_rep_callbacks
      ~BayesianHMSM._prog_rep_descriptions
      ~BayesianHMSM._prog_rep_progressbars
      ~BayesianHMSM._progress_num_registered
      ~BayesianHMSM._progress_registered_stages
      ~BayesianHMSM._save_data_producer
      ~BayesianHMSM.active_set
      ~BayesianHMSM.discrete_trajectories_full
      ~BayesianHMSM.discrete_trajectories_lagged
      ~BayesianHMSM.discrete_trajectories_obs
      ~BayesianHMSM.dt_model
      ~BayesianHMSM.dt_traj
      ~BayesianHMSM.dtrajs_full
      ~BayesianHMSM.dtrajs_lagged
      ~BayesianHMSM.dtrajs_obs
      ~BayesianHMSM.eigenvectors_left_obs
      ~BayesianHMSM.eigenvectors_right_obs
      ~BayesianHMSM.init_hmsm
      ~BayesianHMSM.is_reversible
      ~BayesianHMSM.is_sparse
      ~BayesianHMSM.lagtime
      ~BayesianHMSM.lifetimes
      ~BayesianHMSM.logger
      ~BayesianHMSM.metastable_assignments
      ~BayesianHMSM.metastable_distributions
      ~BayesianHMSM.metastable_memberships
      ~BayesianHMSM.metastable_sets
      ~BayesianHMSM.model
      ~BayesianHMSM.msm_init
      ~BayesianHMSM.n_metastable
      ~BayesianHMSM.name
      ~BayesianHMSM.neig
      ~BayesianHMSM.nstates
      ~BayesianHMSM.nstates_obs
      ~BayesianHMSM.observable_set
      ~BayesianHMSM.observable_state_indexes
      ~BayesianHMSM.observation_probabilities
      ~BayesianHMSM.pi
      ~BayesianHMSM.reversible
      ~BayesianHMSM.samples
      ~BayesianHMSM.show_progress
      ~BayesianHMSM.sparse
      ~BayesianHMSM.stationary_distribution
      ~BayesianHMSM.stationary_distribution_obs
      ~BayesianHMSM.timestep_model
      ~BayesianHMSM.transition_matrix