Index _ | A | B | C | D | E | F | G | H | I | K | L | M | N | O | P | R | S | T | U | V | W | Z _ __array__() (osl_dynamics.simulation.base.Simulation method) (osl_dynamics.simulation.Simulation method) __call__() (osl_dynamics.inference.initializers.CopyTensorInitializer method) (osl_dynamics.inference.initializers.IdentityCholeskyInitializer method) (osl_dynamics.inference.initializers.NormalCorrelationCholeskyInitializer method) (osl_dynamics.inference.initializers.NormalDiagonalInitializer method) (osl_dynamics.inference.initializers.NormalIdentityCholeskyInitializer method) (osl_dynamics.inference.initializers.RandomWeightInitializer method) (osl_dynamics.inference.initializers.WeightInitializer method) (osl_dynamics.inference.regularizers.InverseWishart method) (osl_dynamics.inference.regularizers.LogNormal method) (osl_dynamics.inference.regularizers.MarginalInverseWishart method) (osl_dynamics.inference.regularizers.MultivariateNormal method) __getattr__() (osl_dynamics.models.mod_base.ModelBase method) (osl_dynamics.simulation.base.Simulation method) (osl_dynamics.simulation.HierarchicalHMM_MVN method) (osl_dynamics.simulation.hmm.HierarchicalHMM_MVN method) (osl_dynamics.simulation.hmm.HMM_MAR method) (osl_dynamics.simulation.hmm.HMM_MVN method) (osl_dynamics.simulation.hmm.HMM_Poi method) (osl_dynamics.simulation.hmm.MDyn_HMM_MVN method) (osl_dynamics.simulation.hmm.MSess_HMM_MVN method) (osl_dynamics.simulation.HMM_MAR method) (osl_dynamics.simulation.HMM_MVN method) (osl_dynamics.simulation.HMM_Poi method) (osl_dynamics.simulation.hsmm.HSMM_MVN method) (osl_dynamics.simulation.hsmm.MixedHSMM_MVN method) (osl_dynamics.simulation.HSMM_MVN method) (osl_dynamics.simulation.MDyn_HMM_MVN method) (osl_dynamics.simulation.MixedHSMM_MVN method) (osl_dynamics.simulation.MixedSine_MVN method) (osl_dynamics.simulation.MSess_HMM_MVN method) (osl_dynamics.simulation.MSess_MixedSine_MVN method) (osl_dynamics.simulation.Simulation method) (osl_dynamics.simulation.sm.MixedSine_MVN method) (osl_dynamics.simulation.sm.MSess_MixedSine_MVN method) __getitem__() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) __iadd__() (osl_dynamics.utils.model.Table method) __iter__() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) (osl_dynamics.simulation.base.Simulation method) (osl_dynamics.simulation.Simulation method) __len__() (osl_dynamics.simulation.base.Simulation method) (osl_dynamics.simulation.Simulation method) __post_init__() (osl_dynamics.data.base.SessionLabels method) (osl_dynamics.data.SessionLabels method) (osl_dynamics.models.dive.Config method) (osl_dynamics.models.dynemo.Config method) (osl_dynamics.models.hive.Config method) (osl_dynamics.models.hmm.Config method) (osl_dynamics.models.hmm_poi.Config method) (osl_dynamics.models.mage.Config method) (osl_dynamics.models.mdynemo.Config method) (osl_dynamics.models.sage.Config method) (osl_dynamics.models.simplified_dynemo.Config method) (osl_dynamics.models.state_dynemo.Config method) __repr__() (osl_dynamics.utils.parcellation.Parcellation method) __str__() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) __version__ (in module osl_dynamics) _allowed_ext (in module osl_dynamics.data.rw) _baum_welch() (osl_dynamics.inference.layers.HiddenMarkovStateInferenceLayer method) _build_discriminator_model() (in module osl_dynamics.models.mage) (in module osl_dynamics.models.sage) _build_generator_model() (in module osl_dynamics.models.mage) (in module osl_dynamics.models.sage) _build_inference_model() (in module osl_dynamics.models.mage) (in module osl_dynamics.models.sage) _check_glm_data() (in module osl_dynamics.analysis.statistics) _create_data_dict() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) _create_slots() (osl_dynamics.inference.optimizers.MarkovStateModelOptimizer method) _d_HMM() (osl_dynamics.analysis.fisher_kernel.FisherKernel method) _get_tf_gradients() (osl_dynamics.analysis.fisher_kernel.FisherKernel method) _logger (in module osl_dynamics.analysis.fisher_kernel) (in module osl_dynamics.analysis.gmm) (in module osl_dynamics.analysis.modes) (in module osl_dynamics.analysis.power) (in module osl_dynamics.analysis.regression) (in module osl_dynamics.analysis.spectral) (in module osl_dynamics.analysis.static) (in module osl_dynamics.analysis.statistics) (in module osl_dynamics.config_api.pipeline) (in module osl_dynamics.config_api.wrappers) (in module osl_dynamics.data.base) (in module osl_dynamics.data.rw) (in module osl_dynamics.inference.tf_ops) (in module osl_dynamics.models.dynemo) (in module osl_dynamics.models.hmm) (in module osl_dynamics.models.hmm_poi) (in module osl_dynamics.models.inf_mod_base) (in module osl_dynamics.models.mage) (in module osl_dynamics.models.mdynemo) (in module osl_dynamics.models.mod_base) (in module osl_dynamics.models.sage) (in module osl_dynamics.models.state_dynemo) (in module osl_dynamics.utils.misc) (in module osl_dynamics.utils.plotting) _model_structure() (in module osl_dynamics.models.dive) (in module osl_dynamics.models.hive) (in module osl_dynamics.models.mdynemo) (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.hmm_poi.Model method) (osl_dynamics.models.simplified_dynemo.Model method) (osl_dynamics.models.state_dynemo.Model method) _multitaper() (in module osl_dynamics.analysis.spectral) _multitaper_spectrogram() (in module osl_dynamics.analysis.spectral) _prepare_local() (osl_dynamics.inference.optimizers.MarkovStateModelOptimizer method) _regress_welch_spectrogram() (in module osl_dynamics.analysis.spectral) _repr_html_() (osl_dynamics.models.mod_base.ModelBase method) (osl_dynamics.utils.model.HTMLTable method) _repr_latex_() (osl_dynamics.utils.model.LatexTable method) _resource_apply_dense() (osl_dynamics.inference.optimizers.ExponentialMovingAverage method) (osl_dynamics.inference.optimizers.MarkovStateModelOptimizer method) _resource_apply_sparse() (osl_dynamics.inference.optimizers.MarkovStateModelOptimizer method) _select_covariance_layer() (osl_dynamics.models.dynemo.Model method) _train_discriminator() (osl_dynamics.models.mage.Model method) (osl_dynamics.models.sage.Model method) _trans_prob_update() (osl_dynamics.inference.layers.HiddenMarkovStateInferenceLayer method) _update_rho() (osl_dynamics.models.hmm.Model method) _validate_tf_dataset() (in module osl_dynamics.data.tf) _welch() (in module osl_dynamics.analysis.spectral) _welch_spectrogram() (in module osl_dynamics.analysis.spectral) _window_mean() (in module osl_dynamics.analysis.spectral) A add_epsilon() (in module osl_dynamics.inference.layers) add_regularization() (osl_dynamics.inference.layers.LearnableTensorLayer method) add_session_labels() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) AddLayer (class in osl_dynamics.inference.layers) AddRegularizationLossLayer (class in osl_dynamics.inference.layers) AdversarialLogLikelihoodLossLayer (class in osl_dynamics.inference.layers) alpha_correlation() (in module osl_dynamics.inference.metrics) amplitude_envelope() (in module osl_dynamics.data.processing) (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) append_last() (osl_dynamics.utils.model.HTMLTable method) (osl_dynamics.utils.model.LatexTable method) apply_to_lists() (in module osl_dynamics.array_ops) argmax_time_courses() (in module osl_dynamics.inference.modes) array_to_memmap() (in module osl_dynamics.utils.misc) autocorr_from_tde_cov() (in module osl_dynamics.analysis.modes) autocorr_to_spectra() (in module osl_dynamics.analysis.spectral) available_layouts() (in module osl_dynamics.utils.topoplots) available_outlines() (in module osl_dynamics.utils.topoplots) average_runs() (in module osl_dynamics.inference.modes) B BaseModelConfig (class in osl_dynamics.models.mod_base) batch_size (osl_dynamics.models.mod_base.BaseModelConfig attribute) BatchSizeLayer (class in osl_dynamics.inference.layers) baum_welch() (osl_dynamics.models.hmm.Model method) bayesian_information_criterion() (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) build() (osl_dynamics.inference.layers.LearnableTensorLayer method) build_model() (osl_dynamics.models.dive.Model method) (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.hive.Model method) (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.mage.Model method) (osl_dynamics.models.mdynemo.Model method) (osl_dynamics.models.mod_base.ModelBase method) (osl_dynamics.models.sage.Model method) C calc_gmm_alpha() (in module osl_dynamics.config_api.wrappers) calc_trans_prob_matrix() (in module osl_dynamics.analysis.modes) call() (osl_dynamics.inference.layers.AddLayer method) (osl_dynamics.inference.layers.AddRegularizationLossLayer method) (osl_dynamics.inference.layers.AdversarialLogLikelihoodLossLayer method) (osl_dynamics.inference.layers.BatchSizeLayer method) (osl_dynamics.inference.layers.CategoricalKLDivergenceLayer method) (osl_dynamics.inference.layers.CategoricalLogLikelihoodLossLayer method) (osl_dynamics.inference.layers.CategoricalPoissonLogLikelihoodLossLayer method) (osl_dynamics.inference.layers.ConcatEmbeddingsLayer method) (osl_dynamics.inference.layers.ConcatenateLayer method) (osl_dynamics.inference.layers.ConcatVectorsMatricesLayer method) (osl_dynamics.inference.layers.CorrelationMatricesLayer method) (osl_dynamics.inference.layers.CovarianceMatricesLayer method) (osl_dynamics.inference.layers.DiagonalMatricesLayer method) (osl_dynamics.inference.layers.DummyLayer method) (osl_dynamics.inference.layers.EmbeddingLayer method) (osl_dynamics.inference.layers.GammaExponentialKLDivergenceLayer method) (osl_dynamics.inference.layers.HiddenMarkovStateInferenceLayer method) (osl_dynamics.inference.layers.InferenceRNNLayer method) (osl_dynamics.inference.layers.InverseCholeskyLayer method) (osl_dynamics.inference.layers.KLDivergenceLayer method) (osl_dynamics.inference.layers.KLLossLayer method) (osl_dynamics.inference.layers.LearnableTensorLayer method) (osl_dynamics.inference.layers.LogLikelihoodLossLayer method) (osl_dynamics.inference.layers.MatMulLayer method) (osl_dynamics.inference.layers.MatrixLayer method) (osl_dynamics.inference.layers.MixMatricesLayer method) (osl_dynamics.inference.layers.MixSessionSpecificParametersLayer method) (osl_dynamics.inference.layers.MixVectorsLayer method) (osl_dynamics.inference.layers.ModelRNNLayer method) (osl_dynamics.inference.layers.MultiLayerPerceptronLayer method) (osl_dynamics.inference.layers.SampleGammaDistributionLayer method) (osl_dynamics.inference.layers.SampleGumbelSoftmaxDistributionLayer method) (osl_dynamics.inference.layers.SampleNormalDistributionLayer method) (osl_dynamics.inference.layers.SampleOneHotCategoricalDistributionLayer method) (osl_dynamics.inference.layers.SeparateLogLikelihoodLayer method) (osl_dynamics.inference.layers.SessionParamLayer method) (osl_dynamics.inference.layers.ShiftForForecastingLayer method) (osl_dynamics.inference.layers.SoftmaxLayer method) (osl_dynamics.inference.layers.StaticLossScalingFactorLayer method) (osl_dynamics.inference.layers.SumLogLikelihoodLossLayer method) (osl_dynamics.inference.layers.TFConstantLayer method) (osl_dynamics.inference.layers.TFGatherLayer method) (osl_dynamics.inference.layers.TFRangeLayer method) (osl_dynamics.inference.layers.VectorsLayer method) (osl_dynamics.inference.layers.ZeroLayer method) CategoricalKLDivergenceLayer (class in osl_dynamics.inference.layers) CategoricalLogLikelihoodLossLayer (class in osl_dynamics.inference.layers) CategoricalPoissonLogLikelihoodLossLayer (class in osl_dynamics.inference.layers) channel_ids (osl_dynamics.utils.topoplots.Topology property) check_arguments() (in module osl_dynamics.utils.misc) check_exists() (in module osl_dynamics.files) (in module osl_dynamics.files.functions) check_symmetry() (in module osl_dynamics.array_ops) close() (in module osl_dynamics.utils.plotting) coherence_spectra() (in module osl_dynamics.analysis.spectral) collate_stats() (in module osl_dynamics.analysis.tinda) combine_surfs() (in module osl_dynamics.files.mask) compare_groups_hmm_summary_stats() (in module osl_dynamics.config_api.wrappers) compile() (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) (osl_dynamics.models.mage.Model method) (osl_dynamics.models.mod_base.ModelBase method) (osl_dynamics.models.sage.Model method) compute_fo_stats() (in module osl_dynamics.analysis.tinda) ConcatEmbeddingsLayer (class in osl_dynamics.inference.layers) concatenate_datasets() (in module osl_dynamics.data.tf) ConcatenateLayer (class in osl_dynamics.inference.layers) ConcatVectorsMatricesLayer (class in osl_dynamics.inference.layers) Config (class in osl_dynamics.models.dive) (class in osl_dynamics.models.dynemo) (class in osl_dynamics.models.hive) (class in osl_dynamics.models.hmm) (class in osl_dynamics.models.hmm_poi) (class in osl_dynamics.models.mage) (class in osl_dynamics.models.mdynemo) (class in osl_dynamics.models.sage) (class in osl_dynamics.models.simplified_dynemo) (class in osl_dynamics.models.state_dynemo) config_type (osl_dynamics.models.dive.Model attribute) (osl_dynamics.models.dynemo.Model attribute) (osl_dynamics.models.hive.Model attribute) (osl_dynamics.models.hmm.Model attribute) (osl_dynamics.models.hmm_poi.Model attribute) (osl_dynamics.models.mage.Model attribute) (osl_dynamics.models.mdynemo.Model attribute) (osl_dynamics.models.mod_base.ModelBase attribute) (osl_dynamics.models.sage.Model attribute) (osl_dynamics.models.simplified_dynemo.Model attribute) (osl_dynamics.models.state_dynemo.Model attribute) confusion_matrix() (in module osl_dynamics.inference.metrics) construct_off_diagonal_trans_prob() (osl_dynamics.simulation.HSMM method) (osl_dynamics.simulation.hsmm.HSMM method) construct_sequence_trans_prob() (osl_dynamics.simulation.HMM static method) (osl_dynamics.simulation.hmm.HMM static method) construct_state_vectors() (osl_dynamics.simulation.hsmm.MixedHSMM_MVN method) (osl_dynamics.simulation.MixedHSMM_MVN method) construct_uniform_trans_prob() (osl_dynamics.simulation.HMM static method) (osl_dynamics.simulation.hmm.HMM static method) convert_to_mne_raw() (in module osl_dynamics.inference.modes) CopyTensorInitializer (class in osl_dynamics.inference.initializers) correlate_modes() (in module osl_dynamics.inference.modes) CorrelationMatricesLayer (class in osl_dynamics.inference.layers) count_sequences() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) cov2corr() (in module osl_dynamics.array_ops) cov2std() (in module osl_dynamics.array_ops) covariance_from_spectra() (in module osl_dynamics.analysis.connectivity) CovarianceMatricesLayer (class in osl_dynamics.inference.layers) covariances_epsilon (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.sage.Config attribute) (osl_dynamics.models.simplified_dynemo.Config attribute) (osl_dynamics.models.state_dynemo.Config attribute) covariances_regularizer (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.sage.Config attribute) (osl_dynamics.models.simplified_dynemo.Config attribute) (osl_dynamics.models.state_dynemo.Config attribute) create_covariances() (osl_dynamics.simulation.MVN method) (osl_dynamics.simulation.mvn.MVN method) create_dataset() (in module osl_dynamics.data.tf) create_embeddings() (osl_dynamics.simulation.MSess_MVN method) (osl_dynamics.simulation.mvn.MSess_MVN method) create_figure() (in module osl_dynamics.utils.plotting) create_linear_transform() (osl_dynamics.simulation.MSess_MVN method) (osl_dynamics.simulation.mvn.MSess_MVN method) create_means() (osl_dynamics.simulation.MVN method) (osl_dynamics.simulation.mvn.MVN method) create_rates() (osl_dynamics.simulation.poi.Poisson method) create_scene() (in module osl_dynamics.analysis.workbench) create_session_covariances() (osl_dynamics.simulation.MSess_MVN method) (osl_dynamics.simulation.mvn.MSess_MVN method) create_session_covariances_deviations() (osl_dynamics.simulation.MSess_MVN method) (osl_dynamics.simulation.mvn.MSess_MVN method) create_session_means() (osl_dynamics.simulation.MSess_MVN method) (osl_dynamics.simulation.mvn.MSess_MVN method) create_session_means_deviations() (osl_dynamics.simulation.MSess_MVN method) (osl_dynamics.simulation.mvn.MSess_MVN method) ctf275_channel_names (in module osl_dynamics.files.scanner) D Data (class in osl_dynamics.data) (class in osl_dynamics.data.base) data() (osl_dynamics.utils.parcellation.Parcellation method) dataset() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) decompose_spectra() (in module osl_dynamics.analysis.spectral) delete_dir() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) dense_timeseries() (in module osl_dynamics.analysis.workbench) dev_activation (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.hive.Config attribute) dev_dropout (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.hive.Config attribute) dev_n_layers (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.hive.Config attribute) dev_n_units (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.hive.Config attribute) dev_normalization (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.hive.Config attribute) dev_regularizer (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.hive.Config attribute) dev_regularizer_factor (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.hive.Config attribute) diagonal_covariances (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.simplified_dynemo.Config attribute) (osl_dynamics.models.state_dynemo.Config attribute) DiagonalMatricesLayer (class in osl_dynamics.inference.layers) dice_coefficient() (in module osl_dynamics.inference.metrics) DiceCoefficientCallback (class in osl_dynamics.inference.callbacks) directory (in module osl_dynamics.files.mask) (in module osl_dynamics.files.parcellation) (in module osl_dynamics.files.scanner) discriminator_activation (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.sage.Config attribute) discriminator_dropout (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.sage.Config attribute) discriminator_n_layers (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.sage.Config attribute) discriminator_n_units (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.sage.Config attribute) discriminator_normalization (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.sage.Config attribute) discriminator_regularizer (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.sage.Config attribute) discriminator_rnn (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.sage.Config attribute) do_kl_annealing (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelConfig attribute) downsample() (in module osl_dynamics.data.processing) (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) dual_estimation() (in module osl_dynamics.config_api.wrappers) (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.hmm_poi.Model method) (osl_dynamics.models.simplified_dynemo.Model method) DummyLayer (class in osl_dynamics.inference.layers) E eigenvectors() (in module osl_dynamics.analysis.connectivity) EMADecayCallback (class in osl_dynamics.inference.callbacks) EmbeddingLayer (class in osl_dynamics.inference.layers) embeddings (osl_dynamics.inference.layers.EmbeddingLayer property) embeddings_dim (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.hive.Config attribute) epoch() (in module osl_dynamics.data.task) epoch_mean() (in module osl_dynamics.data.task) EPS (in module osl_dynamics.models.hmm) escape() (osl_dynamics.utils.model.LatexTable method) evidence() (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) evoked_response_max_stat_perm() (in module osl_dynamics.analysis.statistics) ExponentialMovingAverage (class in osl_dynamics.inference.optimizers) ezclump() (in module osl_dynamics.array_ops) F fano_factor() (in module osl_dynamics.analysis.modes) (in module osl_dynamics.inference.modes) fcs_epsilon (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) fcs_regularizer (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) file_ext() (in module osl_dynamics.data.rw) filter() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) find_files() (osl_dynamics.utils.parcellation.Parcellation static method) find_function() (in module osl_dynamics.config_api.pipeline) find_intervals() (in module osl_dynamics.analysis.tinda) find_python_name() (osl_dynamics.utils.misc.NumpyLoader method) fine_tuning() (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.hmm_poi.Model method) (osl_dynamics.models.simplified_dynemo.Model method) FisherKernel (class in osl_dynamics.analysis.fisher_kernel) fit() (osl_dynamics.models.hive.Model method) (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) (osl_dynamics.models.mage.Model method) (osl_dynamics.models.mod_base.ModelBase method) (osl_dynamics.models.sage.Model method) fit_gaussian_mixture() (in module osl_dynamics.analysis.gmm) fit_gmm() (in module osl_dynamics.analysis.connectivity) fractional_occupancies() (in module osl_dynamics.analysis.modes) (in module osl_dynamics.inference.modes) free_energy() (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) frobenius_norm() (in module osl_dynamics.inference.metrics) functional_connectivity() (in module osl_dynamics.analysis.static) G GammaExponentialKLDivergenceLayer (class in osl_dynamics.inference.layers) generate_covariances() (in module osl_dynamics.models.obs_mod) generate_modes() (osl_dynamics.simulation.MixedSine method) (osl_dynamics.simulation.sm.MixedSine method) generate_states() (osl_dynamics.simulation.HierarchicalHMM_MVN method) (osl_dynamics.simulation.HMM method) (osl_dynamics.simulation.hmm.HierarchicalHMM_MVN method) (osl_dynamics.simulation.hmm.HMM method) (osl_dynamics.simulation.HSMM method) (osl_dynamics.simulation.hsmm.HSMM method) get_alpha() (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) (osl_dynamics.models.sage.Model method) get_argument() (in module osl_dynamics.utils.misc) get_colors() (in module osl_dynamics.utils.plotting) get_concatenated_embeddings() (in module osl_dynamics.models.obs_mod) get_covariances() (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.hive.Model method) (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.sage.Model method) get_covs_dev_mag_parameters() (in module osl_dynamics.models.obs_mod) get_covs_spatial_embeddings() (in module osl_dynamics.models.obs_mod) get_dev_mag() (in module osl_dynamics.models.obs_mod) get_dev_mag_parameters() (in module osl_dynamics.models.obs_mod) get_dev_map() (in module osl_dynamics.models.obs_mod) get_embedding_weights() (in module osl_dynamics.models.obs_mod) (osl_dynamics.models.dive.Model method) (osl_dynamics.models.hive.Model method) get_fcs() (osl_dynamics.models.mage.Model method) (osl_dynamics.models.mdynemo.Model method) get_features() (osl_dynamics.analysis.fisher_kernel.FisherKernel method) get_frequency_args_range() (in module osl_dynamics.analysis.spectral) get_group_covariances() (osl_dynamics.models.dive.Model method) (osl_dynamics.models.hive.Model method) get_group_means() (osl_dynamics.models.dive.Model method) (osl_dynamics.models.hive.Model method) get_group_means_covariances() (osl_dynamics.models.dive.Model method) (osl_dynamics.models.hive.Model method) get_group_observation_model_parameters() (osl_dynamics.models.dive.Model method) (osl_dynamics.models.hive.Model method) get_inf_params() (in module osl_dynamics.config_api.wrappers) get_initial_distribution() (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) get_instantaneous_covariances() (osl_dynamics.simulation.hmm.HMM_MVN method) (osl_dynamics.simulation.hmm.MDyn_HMM_MVN method) (osl_dynamics.simulation.hmm.MSess_HMM_MVN method) (osl_dynamics.simulation.HMM_MVN method) (osl_dynamics.simulation.MDyn_HMM_MVN method) (osl_dynamics.simulation.MDyn_MVN method) (osl_dynamics.simulation.MSess_HMM_MVN method) (osl_dynamics.simulation.MSess_MVN method) (osl_dynamics.simulation.MVN method) (osl_dynamics.simulation.mvn.MDyn_MVN method) (osl_dynamics.simulation.mvn.MSess_MVN method) (osl_dynamics.simulation.mvn.MVN method) get_kernel_matrix() (osl_dynamics.analysis.fisher_kernel.FisherKernel method) get_layout() (in module osl_dynamics.utils.topoplots) get_likelihood() (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.hmm_poi.Model method) get_log_likelihood() (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.hmm_poi.Model method) get_log_rates() (osl_dynamics.models.hmm_poi.Model method) get_means() (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.hive.Model method) (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.mage.Model method) (osl_dynamics.models.mdynemo.Model method) (osl_dynamics.models.sage.Model method) get_means_covariances() (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.hive.Model method) (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.sage.Model method) get_means_dev_mag_parameters() (in module osl_dynamics.models.obs_mod) get_means_spatial_embeddings() (in module osl_dynamics.models.obs_mod) get_means_stds_fcs() (osl_dynamics.models.mage.Model method) (osl_dynamics.models.mdynemo.Model method) get_memmap() (osl_dynamics.utils.misc.MockArray class method) get_mode_logits() (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) get_mode_time_courses() (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) (osl_dynamics.models.mage.Model method) get_n_batches() (in module osl_dynamics.data.tf) get_n_channels() (in module osl_dynamics.data.tf) get_n_params_generative_model() (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.hmm_poi.Model method) (osl_dynamics.models.mdynemo.Model method) get_n_sequences() (in module osl_dynamics.data.tf) get_observation_model_parameter() (in module osl_dynamics.models.obs_mod) get_observation_model_parameters() (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.hive.Model method) (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.hmm_poi.Model method) (osl_dynamics.models.mage.Model method) (osl_dynamics.models.mdynemo.Model method) (osl_dynamics.models.sage.Model method) get_one_hot() (in module osl_dynamics.array_ops) get_outline() (in module osl_dynamics.utils.topoplots) get_posterior() (osl_dynamics.models.hmm.Model method) get_posterior_entropy() (osl_dynamics.models.hmm.Model method) get_posterior_expected_log_likelihood() (osl_dynamics.models.hmm.Model method) get_posterior_expected_prior() (osl_dynamics.models.hmm.Model method) get_range() (in module osl_dynamics.data.tf) get_rates() (osl_dynamics.models.hmm_poi.Model method) get_session_dev() (in module osl_dynamics.models.obs_mod) get_session_embeddings() (in module osl_dynamics.models.obs_mod) (osl_dynamics.models.dive.Model method) (osl_dynamics.models.hive.Model method) get_session_instantaneous_covariances() (osl_dynamics.simulation.MSess_MVN method) (osl_dynamics.simulation.mvn.MSess_MVN method) get_session_labels() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) get_session_means_covariances() (in module osl_dynamics.models.obs_mod) (osl_dynamics.models.dive.Model method) (osl_dynamics.models.hive.Model method) get_spatial_embeddings() (in module osl_dynamics.models.obs_mod) get_stationary_distribution() (osl_dynamics.inference.layers.HiddenMarkovStateInferenceLayer method) (osl_dynamics.models.hmm.Model method) get_stds() (osl_dynamics.models.mage.Model method) (osl_dynamics.models.mdynemo.Model method) get_summed_embeddings() (in module osl_dynamics.models.obs_mod) (osl_dynamics.models.dive.Model method) (osl_dynamics.models.hive.Model method) get_surf() (in module osl_dynamics.files.mask) get_theta() (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) get_training_time_series() (osl_dynamics.models.mod_base.ModelBase method) get_trans_prob() (osl_dynamics.inference.layers.HiddenMarkovStateInferenceLayer method) (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) get_weights() (osl_dynamics.models.hmm.Model method) gmm_threshold() (in module osl_dynamics.analysis.connectivity) gmm_time_courses() (in module osl_dynamics.inference.modes) gpu_growth() (in module osl_dynamics.inference.tf_ops) gradient_clip (osl_dynamics.models.mod_base.BaseModelConfig attribute) group_diff_max_stat_perm() (in module osl_dynamics.analysis.statistics) H header_lines (osl_dynamics.utils.model.LatexTable attribute) headers (osl_dynamics.utils.model.HTMLTable attribute) (osl_dynamics.utils.model.LatexTable attribute) height (osl_dynamics.utils.topoplots.Topology property) HiddenMarkovStateInferenceLayer (class in osl_dynamics.inference.layers) HierarchicalHMM_MVN (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.hmm) HMM (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.hmm) HMM_MAR (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.hmm) HMM_MVN (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.hmm) HMM_Poi (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.hmm) horizontal_lines (osl_dynamics.utils.model.LatexTable attribute) HSMM (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.hsmm) HSMM_MVN (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.hsmm) html_headers() (osl_dynamics.utils.model.HTMLTable method) html_row() (osl_dynamics.utils.model.HTMLTable method) html_summary() (osl_dynamics.models.mod_base.ModelBase method) HTMLTable (class in osl_dynamics.utils.model) I IdentityCholeskyInitializer (class in osl_dynamics.inference.initializers) image() (in module osl_dynamics.analysis.workbench) independent_components_to_surface_maps() (in module osl_dynamics.analysis.power) independent_components_to_volumetric_maps() (in module osl_dynamics.analysis.power) inference_activation (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.sage.Config attribute) inference_dropout (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.sage.Config attribute) inference_n_layers (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.sage.Config attribute) inference_n_units (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.sage.Config attribute) inference_normalization (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.sage.Config attribute) inference_regularizer (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.sage.Config attribute) inference_rnn (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.sage.Config attribute) InferenceRNNLayer (class in osl_dynamics.inference.layers) initial_alpha_temperature (osl_dynamics.models.inf_mod_base.VariationalInferenceModelConfig attribute) initial_covariances (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.sage.Config attribute) (osl_dynamics.models.simplified_dynemo.Config attribute) (osl_dynamics.models.state_dynemo.Config attribute) initial_fcs (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) initial_log_rates (osl_dynamics.models.hmm_poi.Config attribute) initial_means (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.sage.Config attribute) (osl_dynamics.models.simplified_dynemo.Config attribute) (osl_dynamics.models.state_dynemo.Config attribute) initial_stds (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) initial_trans_prob (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.hmm_poi.Config attribute) (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelConfig attribute) interval_statistics() (in module osl_dynamics.analysis.modes) intervals() (in module osl_dynamics.analysis.modes) InverseCholeskyLayer (class in osl_dynamics.inference.layers) InverseWishart (class in osl_dynamics.inference.regularizers) is_multi_gpu (osl_dynamics.models.mod_base.ModelBase property) K keep_channels() (osl_dynamics.utils.topoplots.Topology method) kl_annealing_curve (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelConfig attribute) kl_annealing_sharpness (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelConfig attribute) KLAnnealingCallback (class in osl_dynamics.inference.callbacks) KLDivergenceLayer (class in osl_dynamics.inference.layers) KLLossLayer (class in osl_dynamics.inference.layers) L label_type (osl_dynamics.data.base.SessionLabels attribute) (osl_dynamics.data.SessionLabels attribute) latex_row() (osl_dynamics.utils.model.LatexTable static method) latex_summary() (osl_dynamics.models.mod_base.ModelBase method) LatexTable (class in osl_dynamics.utils.model) layouts (in module osl_dynamics.files.scanner) leading_zeros() (in module osl_dynamics.utils.misc) learn_alpha_temperature (osl_dynamics.models.inf_mod_base.VariationalInferenceModelConfig attribute) learn_covariances (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.sage.Config attribute) (osl_dynamics.models.simplified_dynemo.Config attribute) (osl_dynamics.models.state_dynemo.Config attribute) learn_fcs (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) learn_log_rates (osl_dynamics.models.hmm_poi.Config attribute) learn_means (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.sage.Config attribute) (osl_dynamics.models.simplified_dynemo.Config attribute) (osl_dynamics.models.state_dynemo.Config attribute) learn_stds (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) learn_trans_prob (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.hmm_poi.Config attribute) (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelConfig attribute) LearnableTensorLayer (class in osl_dynamics.inference.layers) learning_rate (osl_dynamics.models.mod_base.BaseModelConfig attribute) lifetime_statistics() (in module osl_dynamics.analysis.modes) (in module osl_dynamics.inference.modes) lifetimes() (in module osl_dynamics.analysis.modes) linear() (in module osl_dynamics.analysis.regression) list_dir() (in module osl_dynamics.data.rw) list_means() (in module osl_dynamics.array_ops) list_stds() (in module osl_dynamics.array_ops) listify() (in module osl_dynamics.utils.misc) load() (in module osl_dynamics.models) (in module osl_dynamics.utils.misc) (osl_dynamics.models.mod_base.ModelBase class method) load_config() (in module osl_dynamics.config_api.pipeline) (osl_dynamics.models.mod_base.ModelBase static method) load_data() (in module osl_dynamics.config_api.wrappers) (in module osl_dynamics.data.rw) load_fif() (in module osl_dynamics.data.rw) load_matlab() (in module osl_dynamics.data.rw) load_preparation() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) load_raw_data() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) load_tfrecord_dataset() (in module osl_dynamics.data) (in module osl_dynamics.data.tf) load_weights() (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.mod_base.ModelBase method) loadmat() (in module osl_dynamics.data.rw) logger (in module osl_dynamics) LogLikelihoodLossLayer (class in osl_dynamics.inference.layers) LogNormal (class in osl_dynamics.inference.regularizers) losses() (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) lr_decay (osl_dynamics.models.mod_base.BaseModelConfig attribute) M make_dataset() (osl_dynamics.models.mod_base.ModelBase method) MAR (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.mar) mar_spectra() (in module osl_dynamics.analysis.spectral) MarginalInverseWishart (class in osl_dynamics.inference.regularizers) MarkovStateInferenceModelBase (class in osl_dynamics.models.inf_mod_base) MarkovStateInferenceModelConfig (class in osl_dynamics.models.inf_mod_base) MarkovStateModelOptimizer (class in osl_dynamics.inference.optimizers) match_covariances() (in module osl_dynamics.inference.modes) match_modes() (in module osl_dynamics.inference.modes) MatMulLayer (class in osl_dynamics.inference.layers) MatrixLayer (class in osl_dynamics.inference.layers) max_x (osl_dynamics.utils.topoplots.Topology property) max_y (osl_dynamics.utils.topoplots.Topology property) MDyn_HMM_MVN (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.hmm) MDyn_MVN (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.mvn) mean_amplitudes() (in module osl_dynamics.analysis.modes) (in module osl_dynamics.inference.modes) mean_coherence_from_spectra() (in module osl_dynamics.analysis.connectivity) mean_connections() (in module osl_dynamics.analysis.connectivity) mean_intervals() (in module osl_dynamics.analysis.modes) (in module osl_dynamics.inference.modes) mean_lifetimes() (in module osl_dynamics.analysis.modes) (in module osl_dynamics.inference.modes) means_regularizer (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.sage.Config attribute) (osl_dynamics.models.simplified_dynemo.Config attribute) (osl_dynamics.models.state_dynemo.Config attribute) memmap() (osl_dynamics.utils.misc.MockArray method) min_x (osl_dynamics.utils.topoplots.Topology property) min_y (osl_dynamics.utils.topoplots.Topology property) MixedHSMM_MVN (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.hsmm) MixedSine (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.sm) MixedSine_MVN (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.sm) MixMatricesLayer (class in osl_dynamics.inference.layers) MixSessionSpecificParametersLayer (class in osl_dynamics.inference.layers) MixVectorsLayer (class in osl_dynamics.inference.layers) MockArray (class in osl_dynamics.utils.misc) MockFlags (class in osl_dynamics.utils.misc) mode_scene (in module osl_dynamics.files.scene) mode_time_course (osl_dynamics.simulation.HierarchicalHMM_MVN property) (osl_dynamics.simulation.hmm.HierarchicalHMM_MVN property) (osl_dynamics.simulation.hmm.HMM_MAR property) (osl_dynamics.simulation.hmm.HMM_MVN property) (osl_dynamics.simulation.hmm.HMM_Poi property) (osl_dynamics.simulation.hmm.MDyn_HMM_MVN property) (osl_dynamics.simulation.hmm.MSess_HMM_MVN property) (osl_dynamics.simulation.HMM_MAR property) (osl_dynamics.simulation.HMM_MVN property) (osl_dynamics.simulation.HMM_Poi property) (osl_dynamics.simulation.hsmm.HSMM_MVN property) (osl_dynamics.simulation.hsmm.MixedHSMM_MVN property) (osl_dynamics.simulation.HSMM_MVN property) (osl_dynamics.simulation.MDyn_HMM_MVN property) (osl_dynamics.simulation.MixedHSMM_MVN property) (osl_dynamics.simulation.MSess_HMM_MVN property) Model (class in osl_dynamics.models.dive) (class in osl_dynamics.models.dynemo) (class in osl_dynamics.models.hive) (class in osl_dynamics.models.hmm) (class in osl_dynamics.models.hmm_poi) (class in osl_dynamics.models.mage) (class in osl_dynamics.models.mdynemo) (class in osl_dynamics.models.sage) (class in osl_dynamics.models.simplified_dynemo) (class in osl_dynamics.models.state_dynemo) model_activation (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.sage.Config attribute) (osl_dynamics.models.simplified_dynemo.Config attribute) (osl_dynamics.models.state_dynemo.Config attribute) model_dropout (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.sage.Config attribute) (osl_dynamics.models.simplified_dynemo.Config attribute) (osl_dynamics.models.state_dynemo.Config attribute) model_n_layers (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.sage.Config attribute) (osl_dynamics.models.simplified_dynemo.Config attribute) (osl_dynamics.models.state_dynemo.Config attribute) model_n_units (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.sage.Config attribute) (osl_dynamics.models.simplified_dynemo.Config attribute) (osl_dynamics.models.state_dynemo.Config attribute) model_name (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.hmm_poi.Config attribute) (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.mod_base.BaseModelConfig attribute) (osl_dynamics.models.sage.Config attribute) (osl_dynamics.models.simplified_dynemo.Config attribute) (osl_dynamics.models.state_dynemo.Config attribute) model_normalization (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.sage.Config attribute) (osl_dynamics.models.simplified_dynemo.Config attribute) (osl_dynamics.models.state_dynemo.Config attribute) model_regularizer (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.sage.Config attribute) (osl_dynamics.models.simplified_dynemo.Config attribute) (osl_dynamics.models.state_dynemo.Config attribute) model_rnn (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.sage.Config attribute) (osl_dynamics.models.simplified_dynemo.Config attribute) (osl_dynamics.models.state_dynemo.Config attribute) ModelBase (class in osl_dynamics.models.mod_base) ModelRNNLayer (class in osl_dynamics.inference.layers) models (in module osl_dynamics.models) module osl_dynamics osl_dynamics.analysis osl_dynamics.analysis.connectivity osl_dynamics.analysis.fisher_kernel osl_dynamics.analysis.gmm osl_dynamics.analysis.modes osl_dynamics.analysis.power osl_dynamics.analysis.regression osl_dynamics.analysis.spectral osl_dynamics.analysis.static osl_dynamics.analysis.statistics osl_dynamics.analysis.tinda osl_dynamics.analysis.workbench osl_dynamics.array_ops osl_dynamics.config_api osl_dynamics.config_api.pipeline osl_dynamics.config_api.wrappers osl_dynamics.data osl_dynamics.data.base osl_dynamics.data.processing osl_dynamics.data.rw osl_dynamics.data.task osl_dynamics.data.tf osl_dynamics.files osl_dynamics.files.functions osl_dynamics.files.mask osl_dynamics.files.parcellation osl_dynamics.files.scanner osl_dynamics.files.scene osl_dynamics.inference osl_dynamics.inference.callbacks osl_dynamics.inference.initializers osl_dynamics.inference.layers osl_dynamics.inference.metrics osl_dynamics.inference.modes osl_dynamics.inference.optimizers osl_dynamics.inference.regularizers osl_dynamics.inference.tf_ops osl_dynamics.models osl_dynamics.models.dive osl_dynamics.models.dynemo osl_dynamics.models.hive osl_dynamics.models.hmm osl_dynamics.models.hmm_poi osl_dynamics.models.inf_mod_base osl_dynamics.models.mage osl_dynamics.models.mdynemo osl_dynamics.models.mod_base osl_dynamics.models.obs_mod osl_dynamics.models.sage osl_dynamics.models.simplified_dynemo osl_dynamics.models.state_dynemo osl_dynamics.simulation osl_dynamics.simulation.base osl_dynamics.simulation.hmm osl_dynamics.simulation.hsmm osl_dynamics.simulation.mar osl_dynamics.simulation.mvn osl_dynamics.simulation.poi osl_dynamics.simulation.sm osl_dynamics.utils osl_dynamics.utils.misc osl_dynamics.utils.model osl_dynamics.utils.parcellation osl_dynamics.utils.plotting osl_dynamics.utils.topoplots moving_average() (in module osl_dynamics.data.processing) (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) MSess_HMM_MVN (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.hmm) MSess_MixedSine_MVN (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.sm) MSess_MVN (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.mvn) multi_gpu (osl_dynamics.models.mod_base.BaseModelConfig attribute) multi_save() (in module osl_dynamics.analysis.power) MultiLayerPerceptronLayer (class in osl_dynamics.inference.layers) multiple_dynamics (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.mod_base.BaseModelConfig attribute) multistart_initialization() (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) multitaper_spectra() (in module osl_dynamics.analysis.spectral) (in module osl_dynamics.analysis.static) (in module osl_dynamics.config_api.wrappers) MultivariateNormal (class in osl_dynamics.inference.regularizers) MVN (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.mvn) N n_channels (osl_dynamics.data.base.Data property) (osl_dynamics.data.Data property) (osl_dynamics.models.mod_base.BaseModelConfig attribute) n_epochs (osl_dynamics.models.mod_base.BaseModelConfig attribute) n_fc_modes (osl_dynamics.models.mdynemo.Config attribute) n_kl_annealing_epochs (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelConfig attribute) n_modes (osl_dynamics.models.mod_base.BaseModelConfig attribute) (osl_dynamics.simulation.HierarchicalHMM_MVN property) (osl_dynamics.simulation.hmm.HierarchicalHMM_MVN property) (osl_dynamics.simulation.hmm.HMM_MAR property) (osl_dynamics.simulation.hmm.HMM_MVN property) (osl_dynamics.simulation.hmm.HMM_Poi property) (osl_dynamics.simulation.hmm.MDyn_HMM_MVN property) (osl_dynamics.simulation.hmm.MSess_HMM_MVN property) (osl_dynamics.simulation.HMM_MAR property) (osl_dynamics.simulation.HMM_MVN property) (osl_dynamics.simulation.HMM_Poi property) (osl_dynamics.simulation.hsmm.HSMM_MVN property) (osl_dynamics.simulation.hsmm.MixedHSMM_MVN property) (osl_dynamics.simulation.HSMM_MVN property) (osl_dynamics.simulation.MDyn_HMM_MVN property) (osl_dynamics.simulation.MixedHSMM_MVN property) (osl_dynamics.simulation.MSess_HMM_MVN property) n_samples (osl_dynamics.data.base.Data property) (osl_dynamics.data.Data property) n_sessions (osl_dynamics.data.base.Data property) (osl_dynamics.data.Data property) (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.hive.Config attribute) n_states (osl_dynamics.models.mod_base.BaseModelConfig attribute) name (osl_dynamics.data.base.SessionLabels attribute) (osl_dynamics.data.SessionLabels attribute) neuromag306_channel_names (in module osl_dynamics.files.scanner) nextpow2() (in module osl_dynamics.utils.misc) nnmf() (in module osl_dynamics.config_api.wrappers) nonzero() (osl_dynamics.utils.parcellation.Parcellation method) nonzero_coords() (osl_dynamics.utils.parcellation.Parcellation method) NormalCorrelationCholeskyInitializer (class in osl_dynamics.inference.initializers) NormalDiagonalInitializer (class in osl_dynamics.inference.initializers) NormalIdentityCholeskyInitializer (class in osl_dynamics.inference.initializers) NormalizationLayer() (in module osl_dynamics.inference.layers) NumpyLoader (class in osl_dynamics.utils.misc) O observation_update_decay (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.hmm_poi.Config attribute) on_epoch_end() (osl_dynamics.inference.callbacks.DiceCoefficientCallback method) (osl_dynamics.inference.callbacks.EMADecayCallback method) (osl_dynamics.inference.callbacks.KLAnnealingCallback method) (osl_dynamics.inference.callbacks.SaveBestCallback method) on_train_end() (osl_dynamics.inference.callbacks.SaveBestCallback method) optimise_sequence() (in module osl_dynamics.analysis.tinda) optimizer (osl_dynamics.models.mod_base.BaseModelConfig attribute) osl_dynamics module osl_dynamics.analysis module osl_dynamics.analysis.connectivity module osl_dynamics.analysis.fisher_kernel module osl_dynamics.analysis.gmm module osl_dynamics.analysis.modes module osl_dynamics.analysis.power module osl_dynamics.analysis.regression module osl_dynamics.analysis.spectral module osl_dynamics.analysis.static module osl_dynamics.analysis.statistics module osl_dynamics.analysis.tinda module osl_dynamics.analysis.workbench module osl_dynamics.array_ops module osl_dynamics.config_api module osl_dynamics.config_api.pipeline module osl_dynamics.config_api.wrappers module osl_dynamics.data module osl_dynamics.data.base module osl_dynamics.data.processing module osl_dynamics.data.rw module osl_dynamics.data.task module osl_dynamics.data.tf module osl_dynamics.files module osl_dynamics.files.functions module osl_dynamics.files.mask module osl_dynamics.files.parcellation module osl_dynamics.files.scanner module osl_dynamics.files.scene module osl_dynamics.inference module osl_dynamics.inference.callbacks module osl_dynamics.inference.initializers module osl_dynamics.inference.layers module osl_dynamics.inference.metrics module osl_dynamics.inference.modes module osl_dynamics.inference.optimizers module osl_dynamics.inference.regularizers module osl_dynamics.inference.tf_ops module osl_dynamics.models module osl_dynamics.models.dive module osl_dynamics.models.dynemo module osl_dynamics.models.hive module osl_dynamics.models.hmm module osl_dynamics.models.hmm_poi module osl_dynamics.models.inf_mod_base module osl_dynamics.models.mage module osl_dynamics.models.mdynemo module osl_dynamics.models.mod_base module osl_dynamics.models.obs_mod module osl_dynamics.models.sage module osl_dynamics.models.simplified_dynemo module osl_dynamics.models.state_dynemo module osl_dynamics.simulation module osl_dynamics.simulation.base module osl_dynamics.simulation.hmm module osl_dynamics.simulation.hsmm module osl_dynamics.simulation.mar module osl_dynamics.simulation.mvn module osl_dynamics.simulation.poi module osl_dynamics.simulation.sm module osl_dynamics.utils module osl_dynamics.utils.misc module osl_dynamics.utils.model module osl_dynamics.utils.parcellation module osl_dynamics.utils.plotting module osl_dynamics.utils.topoplots module osl_dynamics_cli() (in module osl_dynamics.config_api.pipeline) osld_version (osl_dynamics.models.mod_base.ModelBase attribute) outer (osl_dynamics.utils.model.HTMLTable attribute) (osl_dynamics.utils.model.LatexTable attribute) output() (osl_dynamics.utils.model.HTMLTable method) (osl_dynamics.utils.model.LatexTable method) override_dict_defaults() (in module osl_dynamics.utils.misc) P paired_diff_max_stat_perm() (in module osl_dynamics.analysis.statistics) pairwise_congruence_coefficient() (in module osl_dynamics.inference.metrics) pairwise_frobenius_distance() (in module osl_dynamics.inference.metrics) pairwise_l2_distance() (in module osl_dynamics.inference.metrics) pairwise_matrix_correlations() (in module osl_dynamics.inference.metrics) pairwise_riemannian_distances() (in module osl_dynamics.inference.metrics) pairwise_rv_coefficient() (in module osl_dynamics.inference.metrics) parcel_vector_to_voxel_grid() (in module osl_dynamics.analysis.power) Parcellation (class in osl_dynamics.utils.parcellation) partial_covariances() (in module osl_dynamics.analysis.modes) path (in module osl_dynamics.files.mask) (in module osl_dynamics.files.parcellation) (in module osl_dynamics.files.scanner) pca() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) pca_components (osl_dynamics.models.mdynemo.Config attribute) plot() (osl_dynamics.utils.parcellation.Parcellation method) plot_alpha() (in module osl_dynamics.config_api.wrappers) (in module osl_dynamics.utils.plotting) plot_bar_chart() (in module osl_dynamics.utils.plotting) plot_brain_surface() (in module osl_dynamics.utils.plotting) plot_burst_summary_stats() (in module osl_dynamics.config_api.wrappers) plot_connections() (in module osl_dynamics.utils.plotting) plot_cycle() (in module osl_dynamics.analysis.tinda) plot_data() (osl_dynamics.utils.topoplots.Topology method) plot_dynemo_network_summary_stats() (in module osl_dynamics.config_api.wrappers) plot_epoched_time_series() (in module osl_dynamics.utils.plotting) plot_evoked_response() (in module osl_dynamics.utils.plotting) plot_gmm() (in module osl_dynamics.utils.plotting) plot_group_ae_networks() (in module osl_dynamics.config_api.wrappers) plot_group_nnmf_tde_hmm_networks() (in module osl_dynamics.config_api.wrappers) plot_group_tde_dynemo_networks() (in module osl_dynamics.config_api.wrappers) plot_group_tde_hmm_networks() (in module osl_dynamics.config_api.wrappers) plot_hist() (in module osl_dynamics.utils.plotting) plot_hmm_network_summary_stats() (in module osl_dynamics.config_api.wrappers) plot_line() (in module osl_dynamics.utils.plotting) plot_matrices() (in module osl_dynamics.utils.plotting) plot_parcellation() (in module osl_dynamics.utils.parcellation) plot_power_maps_from_covariances() (in module osl_dynamics.config_api.wrappers) plot_psd_topo() (in module osl_dynamics.utils.plotting) plot_scatter() (in module osl_dynamics.utils.plotting) plot_separate_time_series() (in module osl_dynamics.utils.plotting) plot_state_lifetimes() (in module osl_dynamics.utils.plotting) plot_state_psds() (in module osl_dynamics.config_api.wrappers) plot_summary_stats_group_diff() (in module osl_dynamics.utils.plotting) plot_tde_covariances() (in module osl_dynamics.config_api.wrappers) plot_time_series() (in module osl_dynamics.utils.plotting) plot_violin() (in module osl_dynamics.utils.plotting) plot_wavelet() (in module osl_dynamics.utils.plotting) Poisson (class in osl_dynamics.simulation.poi) predict() (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) prepare() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) R random_state_time_course_initialization() (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) random_subject_initialization() (osl_dynamics.models.dive.Model method) random_subset_initialization() (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) RandomWeightInitializer (class in osl_dynamics.inference.initializers) raw_covariances() (in module osl_dynamics.analysis.modes) raw_data (osl_dynamics.data.base.Data property) (osl_dynamics.data.Data property) read_lay() (osl_dynamics.utils.topoplots.Topology method) read_outline() (osl_dynamics.utils.topoplots.Topology method) reduce_state_time_course() (in module osl_dynamics.inference.modes) regression_spectra() (in module osl_dynamics.analysis.spectral) (in module osl_dynamics.config_api.wrappers) reinitialize_layer_weights() (in module osl_dynamics.inference.initializers) reinitialize_model_weights() (in module osl_dynamics.inference.initializers) render() (in module osl_dynamics.analysis.workbench) replace_argument() (in module osl_dynamics.utils.misc) rescale_regression_coefs() (in module osl_dynamics.analysis.spectral) reset() (osl_dynamics.models.mod_base.ModelBase method) reset_kl_annealing_factor() (osl_dynamics.models.hive.Model method) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) reset_weights() (osl_dynamics.models.hive.Model method) (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) (osl_dynamics.models.mod_base.ModelBase method) reverse_pca() (in module osl_dynamics.analysis.modes) reweight_alphas() (in module osl_dynamics.inference.modes) riemannian_distance() (in module osl_dynamics.inference.metrics) RNNLayer() (in module osl_dynamics.inference.layers) roi_centers() (osl_dynamics.utils.parcellation.Parcellation method) rough_square_axes() (in module osl_dynamics.utils.plotting) rows (osl_dynamics.utils.model.HTMLTable attribute) (osl_dynamics.utils.model.LatexTable attribute) run_pipeline() (in module osl_dynamics) (in module osl_dynamics.config_api.pipeline) run_pipeline_from_file() (in module osl_dynamics.config_api.pipeline) S sample_alpha() (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.sage.Model method) (osl_dynamics.models.simplified_dynemo.Model method) (osl_dynamics.models.state_dynemo.Model method) sample_mode_time_courses() (osl_dynamics.models.mage.Model method) sample_state_time_course() (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) sample_time_courses() (osl_dynamics.models.mdynemo.Model method) SampleGammaDistributionLayer (class in osl_dynamics.inference.layers) SampleGumbelSoftmaxDistributionLayer (class in osl_dynamics.inference.layers) SampleNormalDistributionLayer (class in osl_dynamics.inference.layers) SampleOneHotCategoricalDistributionLayer (class in osl_dynamics.inference.layers) save() (in module osl_dynamics.analysis.connectivity) (in module osl_dynamics.analysis.power) (in module osl_dynamics.utils.misc) (in module osl_dynamics.utils.plotting) (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) (osl_dynamics.models.mod_base.ModelBase method) (osl_dynamics.utils.misc.MockArray method) save_config() (osl_dynamics.models.mod_base.ModelBase method) save_interactive() (in module osl_dynamics.analysis.connectivity) save_preparation() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) save_tfrecord() (in module osl_dynamics.data.tf) save_tfrecord_dataset() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) save_weights() (osl_dynamics.models.hmm.Model method) SaveBestCallback (class in osl_dynamics.inference.callbacks) select() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) select_gpu() (in module osl_dynamics.inference.tf_ops) sensor_deltas (osl_dynamics.utils.topoplots.Topology property) sensor_names (osl_dynamics.utils.topoplots.Topology property) sensor_positions (osl_dynamics.utils.topoplots.Topology property) separate_edges() (in module osl_dynamics.analysis.connectivity) SeparateLogLikelihoodLayer (class in osl_dynamics.inference.layers) sequence_length (osl_dynamics.models.mod_base.BaseModelConfig attribute) session_labels (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.hive.Config attribute) SessionLabels (class in osl_dynamics.data) (class in osl_dynamics.data.base) SessionParamLayer (class in osl_dynamics.inference.layers) set_buffer_size() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) set_covariances() (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.hive.Model method) (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.sage.Model method) set_covariances_regularizer() (in module osl_dynamics.models.obs_mod) set_dev_parameters_initializer() (in module osl_dynamics.models.obs_mod) (osl_dynamics.models.dive.Model method) (osl_dynamics.models.hive.Model method) set_embeddings_initializer() (in module osl_dynamics.models.obs_mod) (osl_dynamics.models.dive.Model method) (osl_dynamics.models.hive.Model method) set_fcs() (osl_dynamics.models.mage.Model method) (osl_dynamics.models.mdynemo.Model method) set_fcs_regularizer() (in module osl_dynamics.models.obs_mod) set_group_covariances() (osl_dynamics.models.dive.Model method) (osl_dynamics.models.hive.Model method) set_group_means() (osl_dynamics.models.dive.Model method) (osl_dynamics.models.hive.Model method) set_group_means_covariances() (osl_dynamics.models.dive.Model method) (osl_dynamics.models.hive.Model method) set_group_observation_model_parameters() (osl_dynamics.models.dive.Model method) (osl_dynamics.models.hive.Model method) set_keep() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) set_log_rates() (osl_dynamics.models.hmm_poi.Model method) set_logging_level() (in module osl_dynamics.utils.misc) set_means() (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.hive.Model method) (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.mage.Model method) (osl_dynamics.models.mdynemo.Model method) (osl_dynamics.models.sage.Model method) set_means_covariances() (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.hive.Model method) (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.sage.Model method) set_means_regularizer() (in module osl_dynamics.models.obs_mod) set_means_stds_fcs() (osl_dynamics.models.mage.Model method) (osl_dynamics.models.mdynemo.Model method) set_observation_model_parameter() (in module osl_dynamics.models.obs_mod) set_observation_model_parameters() (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.hive.Model method) (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.hmm_poi.Model method) (osl_dynamics.models.mage.Model method) (osl_dynamics.models.mdynemo.Model method) (osl_dynamics.models.sage.Model method) set_random_seed() (in module osl_dynamics.utils) (in module osl_dynamics.utils.misc) set_random_state_time_course_initialization() (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.hmm_poi.Model method) (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) set_rates() (osl_dynamics.models.hmm_poi.Model method) set_regularizers() (osl_dynamics.models.dive.Model method) (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.hive.Model method) (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.hmm_poi.Model method) (osl_dynamics.models.mdynemo.Model method) set_sampling_frequency() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) set_state_probs_t0() (osl_dynamics.models.hmm.Model method) set_static_loss_scaling_factor() (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.mod_base.ModelBase method) set_stds() (osl_dynamics.models.mage.Model method) (osl_dynamics.models.mdynemo.Model method) set_stds_regularizer() (in module osl_dynamics.models.obs_mod) set_style() (in module osl_dynamics.utils.plotting) set_trainable() (osl_dynamics.models.mod_base.ModelBase method) set_trans_prob() (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) set_weights() (osl_dynamics.models.hmm.Model method) setup() (in module osl_dynamics.analysis.workbench) ShiftForForecastingLayer (class in osl_dynamics.inference.layers) show() (in module osl_dynamics.utils.plotting) simple_moving_average() (in module osl_dynamics.analysis.modes) simulate_data() (osl_dynamics.simulation.MAR method) (osl_dynamics.simulation.mar.MAR method) (osl_dynamics.simulation.MDyn_MVN method) (osl_dynamics.simulation.MVN method) (osl_dynamics.simulation.mvn.MDyn_MVN method) (osl_dynamics.simulation.mvn.MVN method) (osl_dynamics.simulation.poi.Poisson method) simulate_multi_session_data() (osl_dynamics.simulation.MSess_MVN method) (osl_dynamics.simulation.mvn.MSess_MVN method) simulate_session_data() (osl_dynamics.simulation.MSess_MVN method) (osl_dynamics.simulation.mvn.MSess_MVN method) Simulation (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.base) single_subject_initialization() (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) slice_length() (in module osl_dynamics.array_ops) sliding_window_connectivity() (in module osl_dynamics.analysis.connectivity) sliding_window_power() (in module osl_dynamics.analysis.power) sliding_window_view() (in module osl_dynamics.array_ops) SoftmaxLayer (class in osl_dynamics.inference.layers) spatial_embeddings_dim (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.hive.Config attribute) spectral_reordering() (in module osl_dynamics.analysis.connectivity) split_interval_duration() (in module osl_dynamics.analysis.tinda) split_intervals() (in module osl_dynamics.analysis.tinda) standardize() (in module osl_dynamics.data.processing) (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) (osl_dynamics.simulation.base.Simulation method) (osl_dynamics.simulation.HierarchicalHMM_MVN method) (osl_dynamics.simulation.hmm.HierarchicalHMM_MVN method) (osl_dynamics.simulation.hmm.HMM_MVN method) (osl_dynamics.simulation.hmm.MDyn_HMM_MVN method) (osl_dynamics.simulation.hmm.MSess_HMM_MVN method) (osl_dynamics.simulation.HMM_MVN method) (osl_dynamics.simulation.hsmm.HSMM_MVN method) (osl_dynamics.simulation.hsmm.MixedHSMM_MVN method) (osl_dynamics.simulation.HSMM_MVN method) (osl_dynamics.simulation.MDyn_HMM_MVN method) (osl_dynamics.simulation.MixedHSMM_MVN method) (osl_dynamics.simulation.MixedSine_MVN method) (osl_dynamics.simulation.MSess_HMM_MVN method) (osl_dynamics.simulation.MSess_MixedSine_MVN method) (osl_dynamics.simulation.Simulation method) (osl_dynamics.simulation.sm.MixedSine_MVN method) (osl_dynamics.simulation.sm.MSess_MixedSine_MVN method) state_activations() (in module osl_dynamics.analysis.modes) state_probs_t0 (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.hmm_poi.Config attribute) StaticLossScalingFactorLayer (class in osl_dynamics.inference.layers) stds_epsilon (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) stds_regularizer (osl_dynamics.models.mage.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) strategy (osl_dynamics.models.mod_base.BaseModelConfig attribute) SumLogLikelihoodLossLayer (class in osl_dynamics.inference.layers) summary_string() (osl_dynamics.models.mod_base.ModelBase method) summary_table() (osl_dynamics.models.mod_base.ModelBase method) suppress_messages() (in module osl_dynamics.inference.tf_ops) surf_left (in module osl_dynamics.files.mask) surf_left_inf (in module osl_dynamics.files.mask) surf_left_vinf (in module osl_dynamics.files.mask) surf_right (in module osl_dynamics.files.mask) surf_right_inf (in module osl_dynamics.files.mask) surf_right_vinf (in module osl_dynamics.files.mask) surfs (in module osl_dynamics.analysis.workbench) switching_rates() (in module osl_dynamics.analysis.modes) (in module osl_dynamics.inference.modes) T Table (class in osl_dynamics.utils.model) td (osl_dynamics.utils.model.HTMLTable attribute) tde() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) tde_pca() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) temporal_filter() (in module osl_dynamics.data.processing) tex_escape() (in module osl_dynamics.utils.model) tfb (in module osl_dynamics.inference.initializers) (in module osl_dynamics.inference.layers) (in module osl_dynamics.inference.regularizers) TFConstantLayer (class in osl_dynamics.inference.layers) TFGatherLayer (class in osl_dynamics.inference.layers) TFRangeLayer (class in osl_dynamics.inference.layers) tfrecord_dataset() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) th (osl_dynamics.utils.model.HTMLTable attribute) theta_normalization (osl_dynamics.models.inf_mod_base.VariationalInferenceModelConfig attribute) theta_std_epsilon (osl_dynamics.models.inf_mod_base.VariationalInferenceModelConfig attribute) threshold() (in module osl_dynamics.analysis.connectivity) time_embed() (in module osl_dynamics.data.processing) time_series() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) tinda() (in module osl_dynamics.analysis.tinda) to_disk() (osl_dynamics.utils.misc.MockArray class method) Topology (class in osl_dynamics.utils.topoplots) topoplot() (in module osl_dynamics.utils.plotting) tr (osl_dynamics.utils.model.HTMLTable attribute) train_dynemo() (in module osl_dynamics.config_api.wrappers) train_hive() (in module osl_dynamics.config_api.wrappers) train_hmm() (in module osl_dynamics.config_api.wrappers) trans_prob_update_delay (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.hmm_poi.Config attribute) (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelConfig attribute) trans_prob_update_forget (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.hmm_poi.Config attribute) (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelConfig attribute) trim_time_series() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) U unit_norm_embeddings (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.hive.Config attribute) update_trans_prob() (osl_dynamics.models.hmm.Model method) V validate() (in module osl_dynamics.array_ops) validate_alpha_parameters() (osl_dynamics.models.inf_mod_base.VariationalInferenceModelConfig method) validate_data() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) validate_dimension_parameters() (osl_dynamics.models.mdynemo.Config method) (osl_dynamics.models.mod_base.BaseModelConfig method) validate_embedding_parameters() (osl_dynamics.models.dive.Config method) (osl_dynamics.models.hive.Config method) (osl_dynamics.simulation.MSess_MVN method) (osl_dynamics.simulation.mvn.MSess_MVN method) validate_inputs() (in module osl_dynamics.data.rw) validate_kl_annealing_parameters() (osl_dynamics.models.hive.Config method) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelConfig method) validate_observation_model_parameters() (osl_dynamics.models.dive.Config method) (osl_dynamics.models.dynemo.Config method) (osl_dynamics.models.hive.Config method) (osl_dynamics.models.hmm.Config method) (osl_dynamics.models.hmm_poi.Config method) (osl_dynamics.models.mage.Config method) (osl_dynamics.models.mdynemo.Config method) (osl_dynamics.models.sage.Config method) (osl_dynamics.models.simplified_dynemo.Config method) (osl_dynamics.models.state_dynemo.Config method) validate_rnn_parameters() (osl_dynamics.models.dive.Config method) (osl_dynamics.models.dynemo.Config method) (osl_dynamics.models.mage.Config method) (osl_dynamics.models.mdynemo.Config method) (osl_dynamics.models.simplified_dynemo.Config method) (osl_dynamics.models.state_dynemo.Config method) validate_session_labels() (osl_dynamics.models.dive.Config method) (osl_dynamics.models.hive.Config method) validate_training_parameters() (osl_dynamics.models.mod_base.BaseModelConfig method) validate_trans_prob_parameters() (osl_dynamics.models.hmm.Config method) (osl_dynamics.models.hmm_poi.Config method) (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelConfig method) values (osl_dynamics.data.base.SessionLabels attribute) (osl_dynamics.data.SessionLabels attribute) variance_from_spectra() (in module osl_dynamics.analysis.power) VariationalInferenceModelBase (class in osl_dynamics.models.inf_mod_base) VariationalInferenceModelConfig (class in osl_dynamics.models.inf_mod_base) VectorsLayer (class in osl_dynamics.inference.layers) vertical_lines (osl_dynamics.utils.model.LatexTable attribute) visualise() (in module osl_dynamics.analysis.workbench) volume_to_surface() (in module osl_dynamics.analysis.workbench) W wavelet() (in module osl_dynamics.analysis.spectral) WeightInitializer (class in osl_dynamics.inference.initializers) weights() (osl_dynamics.utils.parcellation.Parcellation method) welch_spectra() (in module osl_dynamics.analysis.spectral) (in module osl_dynamics.analysis.static) width (osl_dynamics.utils.topoplots.Topology property) Z ZeroLayer (class in osl_dynamics.inference.layers)