pyemma.msm.BayesianMSM
======================

.. currentmodule:: pyemma.msm

.. autoclass:: BayesianMSM

   
   .. automethod:: __init__

   
   .. rubric:: Methods

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

   
   
   .. rubric:: Attributes

   .. autosummary::
   
      ~BayesianMSM.P
      ~BayesianMSM._BayesianMSM__serialize_version
      ~BayesianMSM._Estimator__serialize_fields
      ~BayesianMSM._Loggable__ids
      ~BayesianMSM._Loggable__refs
      ~BayesianMSM._MSMEstimator__serialize_fields
      ~BayesianMSM._MSMEstimator__serialize_version
      ~BayesianMSM._MSM__serialize_fields
      ~BayesianMSM._MSM__serialize_version
      ~BayesianMSM._MaximumLikelihoodMSM__serialize_fields
      ~BayesianMSM._MaximumLikelihoodMSM__serialize_version
      ~BayesianMSM._SampledMSM__serialize_version
      ~BayesianMSM._SerializableMixIn__serialize_fields
      ~BayesianMSM._SerializableMixIn__serialize_modifications_map
      ~BayesianMSM._SerializableMixIn__serialize_version
      ~BayesianMSM.__dict__
      ~BayesianMSM.__doc__
      ~BayesianMSM.__hash__
      ~BayesianMSM.__module__
      ~BayesianMSM.__weakref__
      ~BayesianMSM._estimated
      ~BayesianMSM._loglevel_CRITICAL
      ~BayesianMSM._loglevel_DEBUG
      ~BayesianMSM._loglevel_ERROR
      ~BayesianMSM._loglevel_INFO
      ~BayesianMSM._loglevel_WARN
      ~BayesianMSM._pg_threshold
      ~BayesianMSM._prog_rep_callbacks
      ~BayesianMSM._prog_rep_descriptions
      ~BayesianMSM._prog_rep_progressbars
      ~BayesianMSM._progress_num_registered
      ~BayesianMSM._progress_registered_stages
      ~BayesianMSM._save_data_producer
      ~BayesianMSM.active_count_fraction
      ~BayesianMSM.active_set
      ~BayesianMSM.active_state_fraction
      ~BayesianMSM.active_state_indexes
      ~BayesianMSM.connected_sets
      ~BayesianMSM.connectivity
      ~BayesianMSM.core_set
      ~BayesianMSM.count_matrix_active
      ~BayesianMSM.count_matrix_full
      ~BayesianMSM.discrete_trajectories_active
      ~BayesianMSM.discrete_trajectories_full
      ~BayesianMSM.discrete_trajectories_unmodified
      ~BayesianMSM.dt_model
      ~BayesianMSM.dt_traj
      ~BayesianMSM.dtrajs_active
      ~BayesianMSM.dtrajs_full
      ~BayesianMSM.dtrajs_milestone_counting_offsets
      ~BayesianMSM.dtrajs_unmodified
      ~BayesianMSM.effective_count_matrix
      ~BayesianMSM.is_reversible
      ~BayesianMSM.is_sparse
      ~BayesianMSM.lag
      ~BayesianMSM.lagtime
      ~BayesianMSM.largest_connected_set
      ~BayesianMSM.logger
      ~BayesianMSM.metastable_assignments
      ~BayesianMSM.metastable_distributions
      ~BayesianMSM.metastable_memberships
      ~BayesianMSM.metastable_sets
      ~BayesianMSM.model
      ~BayesianMSM.n_jobs
      ~BayesianMSM.n_metastable
      ~BayesianMSM.name
      ~BayesianMSM.neig
      ~BayesianMSM.nstates
      ~BayesianMSM.nstates_full
      ~BayesianMSM.pi
      ~BayesianMSM.reversible
      ~BayesianMSM.samples
      ~BayesianMSM.show_progress
      ~BayesianMSM.sparse
      ~BayesianMSM.stationary_distribution
      ~BayesianMSM.timestep_model
      ~BayesianMSM.transition_matrix