Index A | B | C | D | E | F | G | H | I | J | K | L | M | N | O | P | R | S | T | U | V | W | X A add_contrast() (osl_dynamics.glm.base.Design method) add_epsilon() (in module osl_dynamics.inference.layers) add_extra_channel() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) add_feature() (osl_dynamics.glm.base.Design method) add_metrics_for_loss() (osl_dynamics.models.mod_base.ModelBase method) add_regularization() (osl_dynamics.inference.layers.LearnableTensorLayer method) add_session_labels() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) align_channel_signs() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) alpha_correlation() (in module osl_dynamics.inference.metrics) alpha_hmm (osl_dynamics.simulation.hmm.MDyn_HMM_MVN attribute) (osl_dynamics.simulation.MDyn_HMM_MVN attribute) alphas (osl_dynamics.inference.callbacks.SummaryStatsCallback attribute) amplitude (osl_dynamics.inference.layers.OscillatorCovarianceMatricesLayer attribute) amplitude_envelope() (in module osl_dynamics.data.processing) (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) amplitudes (osl_dynamics.simulation.MixedSine attribute) (osl_dynamics.simulation.sm.MixedSine attribute) annealing_sharpness (osl_dynamics.inference.callbacks.KLAnnealingCallback attribute) append_last() (osl_dynamics.utils.model.HTMLTable method) (osl_dynamics.utils.model.LatexTable method) apply_amm() (in module osl_dynamics.meeg.amm) apply_gradients() (osl_dynamics.inference.optimizers.MarkovStateModelOptimizer method) apply_lcmv_beamformer() (in module osl_dynamics.meeg.source_recon) apply_to_lists() (in module osl_dynamics.utils.array_ops) argmax_time_courses() (in module osl_dynamics.inference.modes) array_to_memmap() (in module osl_dynamics.utils.misc) arrays (osl_dynamics.data.base.Data attribute) (osl_dynamics.data.Data attribute) autocorr_from_tde_cov() (in module osl_dynamics.analysis.post_hoc) autocorr_to_spectra() (in module osl_dynamics.analysis.spectral) available_dim_reductions (osl_dynamics.analysis.prediction.PipelineBuilder property) available_layouts() (in module osl_dynamics.utils.topoplots) available_outlines() (in module osl_dynamics.utils.topoplots) available_predictors (osl_dynamics.analysis.prediction.PipelineBuilder property) available_scalers (osl_dynamics.analysis.prediction.PipelineBuilder property) average_runs() (in module osl_dynamics.inference.modes) axis (osl_dynamics.inference.layers.TFConcatLayer attribute) (osl_dynamics.inference.layers.TFGatherLayer attribute) B base_optimizer (osl_dynamics.inference.optimizers.MarkovStateModelOptimizer attribute) BaseModelConfig (class in osl_dynamics.models.mod_base) batch_dims (osl_dynamics.inference.layers.TFGatherLayer attribute) batch_size (osl_dynamics.models.mod_base.BaseModelConfig attribute) BatchSizeLayer (class in osl_dynamics.inference.layers) baum_welch_implementation (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelConfig attribute) bem_dir (osl_dynamics.utils.filenames.OSLFilenames attribute) best_model (osl_dynamics.analysis.prediction.ModelSelection attribute) best_of (osl_dynamics.models.mod_base.BaseModelConfig attribute) best_params (osl_dynamics.analysis.prediction.ModelSelection attribute) bet_inskull_mesh_file (osl_dynamics.utils.filenames.CoregFilenames attribute) (osl_dynamics.utils.filenames.SurfaceFilenames attribute) bet_inskull_mesh_vtk_file (osl_dynamics.utils.filenames.CoregFilenames attribute) (osl_dynamics.utils.filenames.SurfaceFilenames attribute) bet_inskull_surf_file (osl_dynamics.utils.filenames.CoregFilenames attribute) bet_outskin_mesh_file (osl_dynamics.utils.filenames.CoregFilenames attribute) (osl_dynamics.utils.filenames.SurfaceFilenames attribute) bet_outskin_mesh_vtk_file (osl_dynamics.utils.filenames.CoregFilenames attribute) (osl_dynamics.utils.filenames.SurfaceFilenames attribute) bet_outskin_plus_nose_mesh_file (osl_dynamics.utils.filenames.CoregFilenames attribute) (osl_dynamics.utils.filenames.SurfaceFilenames attribute) bet_outskin_plus_nose_surf_file (osl_dynamics.utils.filenames.CoregFilenames attribute) bet_outskin_surf_file (osl_dynamics.utils.filenames.CoregFilenames attribute) bet_outskull_mesh_file (osl_dynamics.utils.filenames.CoregFilenames attribute) (osl_dynamics.utils.filenames.SurfaceFilenames attribute) bet_outskull_mesh_vtk_file (osl_dynamics.utils.filenames.CoregFilenames attribute) (osl_dynamics.utils.filenames.SurfaceFilenames attribute) bet_outskull_surf_file (osl_dynamics.utils.filenames.CoregFilenames attribute) beta_hmm (osl_dynamics.simulation.hmm.MDyn_HMM_MVN attribute) (osl_dynamics.simulation.MDyn_HMM_MVN attribute) between_group_scale (osl_dynamics.simulation.MSess_MVN attribute) (osl_dynamics.simulation.obs_mod.MSess_MVN attribute) bijector (osl_dynamics.inference.initializers.IdentityCholeskyInitializer attribute) (osl_dynamics.inference.initializers.NormalCorrelationCholeskyInitializer attribute) (osl_dynamics.inference.initializers.NormalDiagonalInitializer attribute) (osl_dynamics.inference.initializers.NormalIdentityCholeskyInitializer attribute) (osl_dynamics.inference.layers.CorrelationMatricesLayer attribute) (osl_dynamics.inference.layers.CovarianceMatricesLayer attribute) (osl_dynamics.inference.layers.DiagonalMatricesLayer attribute) (osl_dynamics.inference.layers.InverseCholeskyLayer attribute) (osl_dynamics.inference.regularizers.InverseWishart attribute) (osl_dynamics.inference.regularizers.LogNormal attribute) (osl_dynamics.inference.regularizers.MarginalInverseWishart attribute) bottom_level_hmms (osl_dynamics.simulation.HierarchicalHMM_MVN attribute) (osl_dynamics.simulation.hmm.HierarchicalHMM_MVN attribute) buffer_size (osl_dynamics.data.base.Data attribute) (osl_dynamics.data.Data attribute) build() (osl_dynamics.inference.layers.CorrelationMatricesLayer method) (osl_dynamics.inference.layers.CovarianceMatricesLayer method) (osl_dynamics.inference.layers.DiagonalMatricesLayer method) (osl_dynamics.inference.layers.EmbeddingLayer method) (osl_dynamics.inference.layers.HiddenMarkovStateInferenceLayer method) (osl_dynamics.inference.layers.InferenceRNNLayer method) (osl_dynamics.inference.layers.LearnableTensorLayer method) (osl_dynamics.inference.layers.MatrixLayer method) (osl_dynamics.inference.layers.ModelRNNLayer method) (osl_dynamics.inference.layers.MultiLayerPerceptronLayer method) (osl_dynamics.inference.layers.OscillatorCovarianceMatricesLayer method) (osl_dynamics.inference.layers.SoftmaxLayer method) (osl_dynamics.inference.layers.VectorsLayer method) build_contrast_array() (osl_dynamics.glm.base.Design method) build_model() (osl_dynamics.analysis.prediction.PipelineBuilder method) (osl_dynamics.models.dive.Model method) (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.dyneste.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) (osl_dynamics.models.mod_base.ModelBase method) (osl_dynamics.models.sc_dynemo.Model method) build_X() (osl_dynamics.glm.base.Design method) C c (osl_dynamics.glm.base.GLM attribute) (osl_dynamics.glm.GLM attribute) (osl_dynamics.glm.permutation.Permutation attribute) c_contiguous (osl_dynamics.utils.misc.MockFlags attribute) calc_gmm_alpha() (in module osl_dynamics.config_api.wrappers) calc_trans_prob_matrix() (in module osl_dynamics.analysis.post_hoc) calculation (osl_dynamics.inference.layers.CategoricalKLDivergenceLayer attribute) (osl_dynamics.inference.layers.CategoricalLogLikelihoodLossLayer attribute) (osl_dynamics.inference.layers.KLDivergenceLayer attribute) (osl_dynamics.inference.layers.LogLikelihoodLossLayer attribute) (osl_dynamics.inference.layers.SumLogLikelihoodLossLayer attribute) call() (osl_dynamics.inference.layers.BatchSizeLayer method) (osl_dynamics.inference.layers.CategoricalKLDivergenceLayer method) (osl_dynamics.inference.layers.CategoricalLogLikelihoodLossLayer method) (osl_dynamics.inference.layers.ConcatEmbeddingsLayer 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.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.OscillatorCovarianceMatricesLayer 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.SeparatePoissonLogLikelihoodLayer method) (osl_dynamics.inference.layers.SessionParamLayer method) (osl_dynamics.inference.layers.SoftmaxLayer method) (osl_dynamics.inference.layers.SumLogLikelihoodLossLayer method) (osl_dynamics.inference.layers.TFAddLayer method) (osl_dynamics.inference.layers.TFBroadcastToLayer method) (osl_dynamics.inference.layers.TFConcatLayer method) (osl_dynamics.inference.layers.TFConstantLayer method) (osl_dynamics.inference.layers.TFGatherLayer method) (osl_dynamics.inference.layers.TFMatMulLayer method) (osl_dynamics.inference.layers.TFRangeLayer method) (osl_dynamics.inference.layers.TFZerosLayer method) (osl_dynamics.inference.layers.VectorsLayer method) CategoricalKLDivergenceLayer (class in osl_dynamics.inference.layers) CategoricalLogLikelihoodLossLayer (class in osl_dynamics.inference.layers) channel_activity (osl_dynamics.simulation.obs_mod.OscillatoryBursts attribute) (osl_dynamics.simulation.OscillatoryBursts attribute) 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.utils.array_ops) checkpoint (osl_dynamics.inference.callbacks.CheckpointCallback attribute) checkpoint_dir (osl_dynamics.inference.callbacks.CheckpointCallback attribute) checkpoint_prefix (osl_dynamics.inference.callbacks.CheckpointCallback attribute) CheckpointCallback (class in osl_dynamics.inference.callbacks) circle_angles() (in module osl_dynamics.analysis.tinda) clip_start (osl_dynamics.inference.layers.CategoricalKLDivergenceLayer attribute) (osl_dynamics.inference.layers.KLDivergenceLayer attribute) close() (in module osl_dynamics.utils.plotting) coeffs (osl_dynamics.simulation.MAR attribute) (osl_dynamics.simulation.obs_mod.MAR attribute) 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.hive.Model method) (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) (osl_dynamics.models.mod_base.ModelBase method) compute_cycle_strength() (in module osl_dynamics.analysis.tinda) compute_fo_stats() (in module osl_dynamics.analysis.tinda) compute_gradients() (osl_dynamics.inference.callbacks.GradientMonitoringCallback method) compute_output_shape() (osl_dynamics.inference.layers.HiddenMarkovStateInferenceLayer method) (osl_dynamics.inference.layers.SeparateLogLikelihoodLayer method) ConcatEmbeddingsLayer (class in osl_dynamics.inference.layers) concatenate_datasets() (in module osl_dynamics.data.tf) Config (class in osl_dynamics.models.dive) (class in osl_dynamics.models.dynemo) (class in osl_dynamics.models.dyneste) (class in osl_dynamics.models.hive) (class in osl_dynamics.models.hmm) (class in osl_dynamics.models.hmm_poi) (class in osl_dynamics.models.mdynemo) (class in osl_dynamics.models.sc_dynemo) config (osl_dynamics.models.mod_base.ModelBase attribute) config_type (osl_dynamics.models.dive.Model attribute) (osl_dynamics.models.dynemo.Model attribute) (osl_dynamics.models.dyneste.Model attribute) (osl_dynamics.models.hive.Model attribute) (osl_dynamics.models.hmm.Model attribute) (osl_dynamics.models.hmm_poi.Model attribute) (osl_dynamics.models.mdynemo.Model attribute) (osl_dynamics.models.mod_base.ModelBase attribute) (osl_dynamics.models.sc_dynemo.Model attribute) confusion_matrix() (in module osl_dynamics.inference.metrics) constraint (osl_dynamics.inference.layers.LearnableTensorLayer attribute) (osl_dynamics.inference.layers.MatrixLayer attribute) 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) Contrast (class in osl_dynamics.glm.base) contrast_indx (osl_dynamics.glm.permutation.Permutation attribute) contrast_names (osl_dynamics.glm.base.Design property) (osl_dynamics.glm.base.GLM property) (osl_dynamics.glm.GLM property) contrast_type (osl_dynamics.glm.base.Contrast attribute) contrast_types (osl_dynamics.glm.base.Design property) (osl_dynamics.glm.base.GLM property) (osl_dynamics.glm.GLM property) contrasts (osl_dynamics.glm.base.Design attribute) (osl_dynamics.glm.base.DesignConfig attribute) (osl_dynamics.glm.DesignConfig attribute) convert_to_mne_raw() (in module osl_dynamics.inference.modes) (in module osl_dynamics.meeg.parcellation) copes (osl_dynamics.glm.permutation.Permutation property) CopyTensorInitializer (class in osl_dynamics.inference.initializers) coreg (osl_dynamics.utils.filenames.OSLFilenames attribute) coreg_dir (osl_dynamics.utils.filenames.OSLFilenames attribute) CoregFilenames (class in osl_dynamics.utils.filenames) coregister_head_and_mri() (in module osl_dynamics.meeg.rhino) correlate_modes() (in module osl_dynamics.inference.modes) CorrelationMatricesLayer (class in osl_dynamics.inference.layers) corrs (osl_dynamics.simulation.MDyn_MVN attribute) (osl_dynamics.simulation.obs_mod.MDyn_MVN attribute) corrs_epsilon (osl_dynamics.models.mdynemo.Config attribute) corrs_regularizer (osl_dynamics.models.mdynemo.Config attribute) count_sequences() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) cov2corr() (in module osl_dynamics.utils.array_ops) cov2partialcorr() (in module osl_dynamics.utils.array_ops) cov2partialcov() (in module osl_dynamics.utils.array_ops) cov2std() (in module osl_dynamics.utils.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.dyneste.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) covariances_regularizer (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) covs (osl_dynamics.simulation.MAR attribute) (osl_dynamics.simulation.obs_mod.MAR attribute) create_covariances() (osl_dynamics.simulation.MVN method) (osl_dynamics.simulation.obs_mod.MVN method) create_dataset() (in module osl_dynamics.data.tf) create_design() (osl_dynamics.glm.base.DesignConfig method) (osl_dynamics.glm.DesignConfig method) create_embeddings() (osl_dynamics.simulation.MSess_MVN method) (osl_dynamics.simulation.obs_mod.MSess_MVN method) create_figure() (in module osl_dynamics.utils.plotting) create_linear_transform() (osl_dynamics.simulation.MSess_MVN method) (osl_dynamics.simulation.obs_mod.MSess_MVN method) create_means() (osl_dynamics.simulation.MVN method) (osl_dynamics.simulation.obs_mod.MVN method) create_rates() (osl_dynamics.simulation.obs_mod.Poisson method) (osl_dynamics.simulation.Poisson method) create_scene() (in module osl_dynamics.utils.workbench) create_session_covariances() (osl_dynamics.simulation.MSess_MVN method) (osl_dynamics.simulation.obs_mod.MSess_MVN method) create_session_covariances_deviations() (osl_dynamics.simulation.MSess_MVN method) (osl_dynamics.simulation.obs_mod.MSess_MVN method) create_session_means() (osl_dynamics.simulation.MSess_MVN method) (osl_dynamics.simulation.obs_mod.MSess_MVN method) create_session_means_deviations() (osl_dynamics.simulation.MSess_MVN method) (osl_dynamics.simulation.obs_mod.MSess_MVN method) cross_validation_scores() (osl_dynamics.analysis.prediction.ModelSelection method) CSS (in module osl_dynamics.meeg.report) ctf275_channel_names (in module osl_dynamics.files.scanner) ctf_head_mri_t_file (osl_dynamics.utils.filenames.CoregFilenames attribute) curve (osl_dynamics.inference.callbacks.GumbelSoftmaxAnnealingCallback attribute) (osl_dynamics.inference.callbacks.KLAnnealingCallback attribute) cv (osl_dynamics.analysis.prediction.ModelSelection attribute) D Data (class in osl_dynamics.data) (class in osl_dynamics.data.base) data() (osl_dynamics.meeg.parcellation.Parcellation method) data_field (osl_dynamics.data.base.Data attribute) (osl_dynamics.data.Data attribute) dataset() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) decay (osl_dynamics.inference.optimizers.ExponentialMovingAverage attribute) decimate_headshape_points() (in module osl_dynamics.meeg.preproc) decompose_spectra() (in module osl_dynamics.analysis.spectral) DEFAULT_DIM_REDUCTION (osl_dynamics.analysis.prediction.PipelineBuilder attribute) DEFAULT_PREDICTOR (osl_dynamics.analysis.prediction.PipelineBuilder attribute) DEFAULT_SCALER (osl_dynamics.analysis.prediction.PipelineBuilder attribute) delay (osl_dynamics.inference.callbacks.EMADecayCallback attribute) delete_dir() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) dense_timeseries() (in module osl_dynamics.utils.workbench) Design (class in osl_dynamics.glm.base) design (osl_dynamics.glm.base.GLM attribute) (osl_dynamics.glm.GLM attribute) DesignConfig (class in osl_dynamics.glm) (class in osl_dynamics.glm.base) detect_bad_channels() (in module osl_dynamics.meeg.preproc) detect_bad_segments() (in module osl_dynamics.meeg.preproc) 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.dyneste.Config attribute) (osl_dynamics.models.hmm.Config attribute) DiagonalMatricesLayer (class in osl_dynamics.inference.layers) dice_coefficient() (in module osl_dynamics.inference.metrics) DiceCoefficientCallback (class in osl_dynamics.inference.callbacks) dim_reduction_dict (osl_dynamics.analysis.prediction.PipelineBuilder attribute) dims (osl_dynamics.meeg.parcellation.Parcellation attribute) directory (in module osl_dynamics.files.mask) (in module osl_dynamics.files.mni152_surfaces) (in module osl_dynamics.files.parcellation) (in module osl_dynamics.files.scanner) do_gs_annealing (osl_dynamics.models.dyneste.Config attribute) do_kl_annealing (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelConfig attribute) dof (osl_dynamics.glm.base.Design property) (osl_dynamics.glm.base.GLM property) (osl_dynamics.glm.GLM property) downsample() (in module osl_dynamics.data.processing) (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) dtype (osl_dynamics.utils.misc.MockArray attribute) dual_estimation() (in module osl_dynamics.config_api.wrappers) (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.hmm.Model method) DummyLayer (class in osl_dynamics.inference.layers) E eigenvectors() (in module osl_dynamics.analysis.connectivity) elc_file (osl_dynamics.utils.filenames.OSLFilenames attribute) ema_optimizer (osl_dynamics.inference.optimizers.MarkovStateModelOptimizer attribute) ema_variable_ids (osl_dynamics.inference.optimizers.MarkovStateModelOptimizer attribute) EMADecayCallback (class in osl_dynamics.inference.callbacks) embedding_layer (osl_dynamics.inference.layers.EmbeddingLayer attribute) 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) (osl_dynamics.simulation.MSess_MVN attribute) (osl_dynamics.simulation.obs_mod.MSess_MVN attribute) embeddings_scale (osl_dynamics.simulation.MSess_MVN attribute) (osl_dynamics.simulation.obs_mod.MSess_MVN attribute) end_temperature (osl_dynamics.inference.callbacks.GumbelSoftmaxAnnealingCallback attribute) ensure_pos_def() (in module osl_dynamics.utils.array_ops) epoch() (in module osl_dynamics.data.task) epoch_mean() (in module osl_dynamics.data.task) epsilon (osl_dynamics.inference.layers.CorrelationMatricesLayer attribute) (osl_dynamics.inference.layers.CovarianceMatricesLayer attribute) (osl_dynamics.inference.layers.DiagonalMatricesLayer attribute) (osl_dynamics.inference.layers.GammaExponentialKLDivergenceLayer attribute) (osl_dynamics.inference.layers.InverseCholeskyLayer attribute) (osl_dynamics.inference.layers.KLDivergenceLayer attribute) (osl_dynamics.inference.layers.OscillatorCovarianceMatricesLayer attribute) (osl_dynamics.inference.layers.SampleGammaDistributionLayer attribute) (osl_dynamics.inference.layers.SampleNormalDistributionLayer attribute) (osl_dynamics.inference.layers.SessionParamLayer attribute) (osl_dynamics.inference.regularizers.InverseWishart attribute) (osl_dynamics.inference.regularizers.LogNormal attribute) (osl_dynamics.inference.regularizers.MarginalInverseWishart attribute) error() (osl_dynamics.utils.logger.MEEGSessionLogger method) escape() (osl_dynamics.utils.model.LatexTable method) evidence() (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) extract_fiducials_and_headshape_from_elc() (in module osl_dynamics.meeg.rhino) extract_fiducials_and_headshape_from_fif() (in module osl_dynamics.meeg.rhino) extract_fiducials_and_headshape_from_pos() (in module osl_dynamics.meeg.rhino) extract_surfaces() (in module osl_dynamics.meeg.rhino) ezclump() (in module osl_dynamics.utils.array_ops) F f_contiguous (osl_dynamics.utils.misc.MockFlags attribute) fano_factor() (in module osl_dynamics.analysis.post_hoc) (in module osl_dynamics.inference.modes) Feature (class in osl_dynamics.glm.base) feature_names (osl_dynamics.glm.base.Design property) (osl_dynamics.glm.base.GLM property) (osl_dynamics.glm.GLM property) feature_type (osl_dynamics.glm.base.Feature attribute) feature_types (osl_dynamics.glm.base.Design property) (osl_dynamics.glm.base.GLM property) (osl_dynamics.glm.GLM property) features (osl_dynamics.glm.base.Design attribute) (osl_dynamics.glm.base.DesignConfig attribute) (osl_dynamics.glm.DesignConfig attribute) file (osl_dynamics.meeg.parcellation.Parcellation attribute) file_ext() (in module osl_dynamics.data.rw) filename (osl_dynamics.utils.misc.MockArray attribute) filter() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) filters (osl_dynamics.utils.filenames.OSLFilenames attribute) final_gs_temperature (osl_dynamics.models.dyneste.Config attribute) find_files() (osl_dynamics.meeg.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) FisherKernel (class in osl_dynamics.analysis.fisher_kernel) fit() (osl_dynamics.glm.base.GLM method) (osl_dynamics.glm.GLM method) (osl_dynamics.glm.MaxStatPermutation method) (osl_dynamics.glm.permutation.MaxStatPermutation method) (osl_dynamics.glm.permutation.Permutation method) (osl_dynamics.models.dyneste.Model method) (osl_dynamics.models.hive.Model method) (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) (osl_dynamics.models.mod_base.ModelBase method) fit_gaussian_mixture() (in module osl_dynamics.utils.sklearn_wrappers) fit_gmm() (in module osl_dynamics.analysis.connectivity) flags (osl_dynamics.utils.misc.MockArray attribute) flush() (osl_dynamics.utils.logger.MEEGSessionLogger method) forget (osl_dynamics.inference.callbacks.EMADecayCallback attribute) forward_model() (in module osl_dynamics.meeg.rhino) fractional_occupancies() (in module osl_dynamics.analysis.post_hoc) (in module osl_dynamics.inference.modes) free_energy() (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) frequencies (osl_dynamics.simulation.MixedSine attribute) (osl_dynamics.simulation.sm.MixedSine attribute) frequency (osl_dynamics.inference.layers.OscillatorCovarianceMatricesLayer attribute) frequency_range (osl_dynamics.models.sc_dynemo.Config attribute) frobenius_norm() (in module osl_dynamics.inference.metrics) fsl_dir (osl_dynamics.utils.filenames.SurfaceFilenames attribute) full_trans_prob (osl_dynamics.simulation.HSMM attribute) (osl_dynamics.simulation.hsmm.HSMM attribute) functional_connectivity() (in module osl_dynamics.analysis.static) fwd_model (osl_dynamics.utils.filenames.OSLFilenames attribute) G gamma_scale (osl_dynamics.simulation.HSMM attribute) (osl_dynamics.simulation.hsmm.HSMM attribute) gamma_shape (osl_dynamics.simulation.HSMM attribute) (osl_dynamics.simulation.hsmm.HSMM attribute) 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_report() (in module osl_dynamics.meeg.report) 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.inf_mod_base.MarkovStateInferenceModelBase method) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) get_amplitude() (osl_dynamics.models.sc_dynemo.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_corrs() (osl_dynamics.models.mdynemo.Model method) get_covariances() (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.dyneste.Model method) (osl_dynamics.models.hive.Model method) (osl_dynamics.models.hmm.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_degree_of_freedom() (in module osl_dynamics.glm.ols) 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_features() (osl_dynamics.analysis.fisher_kernel.FisherKernel method) get_frequency() (osl_dynamics.models.sc_dynemo.Model 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_state_probs() (osl_dynamics.inference.layers.HiddenMarkovStateInferenceLayer method) (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.obs_mod.MDyn_MVN method) (osl_dynamics.simulation.obs_mod.MSess_MVN method) (osl_dynamics.simulation.obs_mod.MVN method) get_kernel_matrix() (osl_dynamics.analysis.fisher_kernel.FisherKernel method) get_layout() (in module osl_dynamics.utils.topoplots) get_log_likelihood() (osl_dynamics.models.hmm_poi.Model method) (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) get_log_rates() (osl_dynamics.models.hmm_poi.Model method) get_means() (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.dyneste.Model method) (osl_dynamics.models.hive.Model method) (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.mdynemo.Model method) get_means_covariances() (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.dyneste.Model method) (osl_dynamics.models.hive.Model method) (osl_dynamics.models.hmm.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_corrs() (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) get_n_batches() (in module osl_dynamics.data.tf) get_n_channels() (in module osl_dynamics.data.tf) get_n_sequences() (in module osl_dynamics.data.tf) get_n_sequences_and_range() (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.dyneste.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) get_one_hot() (in module osl_dynamics.utils.array_ops) get_oscillator_parameters() (osl_dynamics.models.sc_dynemo.Model method) get_outline() (in module osl_dynamics.utils.topoplots) get_params_grid() (osl_dynamics.analysis.prediction.PipelineBuilder method) get_posterior_entropy() (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) get_posterior_expected_log_likelihood() (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) get_posterior_expected_prior() (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) get_pvalues() (osl_dynamics.glm.MaxStatPermutation method) (osl_dynamics.glm.permutation.MaxStatPermutation method) get_range() (in module osl_dynamics.data.tf) get_rates() (osl_dynamics.models.hmm_poi.Model method) get_residuals() (in module osl_dynamics.glm.ols) 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.obs_mod.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_static_loss_scaling_factor() (osl_dynamics.models.mod_base.ModelBase method) get_stationary_distribution() (osl_dynamics.inference.layers.HiddenMarkovStateInferenceLayer method) get_stds() (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.inf_mod_base.MarkovStateInferenceModelBase method) get_tstats() (osl_dynamics.glm.base.GLM method) (osl_dynamics.glm.GLM method) get_varcopes() (in module osl_dynamics.glm.ols) get_variance() (osl_dynamics.models.sc_dynemo.Model method) get_viterbi_path() (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelBase method) GLM (class in osl_dynamics.glm) (class in osl_dynamics.glm.base) glm (osl_dynamics.glm.permutation.Permutation attribute) 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) GradientMonitoringCallback (class in osl_dynamics.inference.callbacks) group_diff_max_stat_perm() (in module osl_dynamics.analysis.statistics) gs_annealing_curve (osl_dynamics.models.dyneste.Config attribute) gs_annealing_slope (osl_dynamics.models.dyneste.Config attribute) GumbelSoftmaxAnnealingCallback (class in osl_dynamics.inference.callbacks) H head_headshape_file (osl_dynamics.utils.filenames.CoregFilenames attribute) head_lpa_file (osl_dynamics.utils.filenames.CoregFilenames attribute) head_mri_t_file (osl_dynamics.utils.filenames.CoregFilenames attribute) head_nasion_file (osl_dynamics.utils.filenames.CoregFilenames attribute) head_rpa_file (osl_dynamics.utils.filenames.CoregFilenames attribute) head_scaledmri_t_file (osl_dynamics.utils.filenames.CoregFilenames attribute) header_lines (osl_dynamics.utils.model.LatexTable attribute) headers (osl_dynamics.utils.model.HTMLTable attribute) (osl_dynamics.utils.model.LatexTable attribute) (osl_dynamics.utils.model.Table 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 (osl_dynamics.simulation.hmm.HMM_MAR attribute) (osl_dynamics.simulation.hmm.HMM_MVN attribute) (osl_dynamics.simulation.hmm.HMM_OscillatoryBursts attribute) (osl_dynamics.simulation.hmm.HMM_Poi attribute) (osl_dynamics.simulation.hmm.HMM_TDECovs attribute) (osl_dynamics.simulation.hmm.MSess_HMM_MVN attribute) (osl_dynamics.simulation.HMM_MAR attribute) (osl_dynamics.simulation.HMM_MVN attribute) (osl_dynamics.simulation.HMM_OscillatoryBursts attribute) (osl_dynamics.simulation.HMM_Poi attribute) (osl_dynamics.simulation.HMM_TDECovs attribute) (osl_dynamics.simulation.MSess_HMM_MVN attribute) hmm_dual_estimation() (in module osl_dynamics.analysis.post_hoc) hmm_features() (in module osl_dynamics.analysis.post_hoc) 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_OscillatoryBursts (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.hmm) HMM_Poi (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.hmm) HMM_TDECovs (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.hmm) horizontal_lines (osl_dynamics.utils.model.LatexTable attribute), [1] HSMM (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.hsmm) hsmm (osl_dynamics.simulation.hsmm.HSMM_MVN attribute) (osl_dynamics.simulation.hsmm.MixedHSMM_MVN attribute) (osl_dynamics.simulation.HSMM_MVN attribute) (osl_dynamics.simulation.MixedHSMM_MVN attribute) 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 ica_ecg_eog_correlation() (in module osl_dynamics.meeg.preproc) ica_label() (in module osl_dynamics.meeg.preproc) id (osl_dynamics.utils.filenames.OSLFilenames attribute) IdentityCholeskyInitializer (class in osl_dynamics.inference.initializers) image() (in module osl_dynamics.utils.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.dyneste.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) inference_dropout (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) inference_n_layers (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) inference_n_units (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) inference_normalization (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) inference_regularizer (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) inference_rnn (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) InferenceRNNLayer (class in osl_dynamics.inference.layers) info_fif_file (osl_dynamics.utils.filenames.CoregFilenames attribute) init_method (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.hmm_poi.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.mod_base.BaseModelConfig attribute) init_take (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.hmm_poi.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.mod_base.BaseModelConfig attribute) initial_alpha_temperature (osl_dynamics.models.inf_mod_base.VariationalInferenceModelConfig attribute) initial_corrs (osl_dynamics.models.mdynemo.Config attribute) initial_covariances (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) initial_gs_temperature (osl_dynamics.models.dyneste.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.dyneste.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) initial_state_probs (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelConfig attribute) initial_stds (osl_dynamics.models.mdynemo.Config attribute) initial_trans_prob (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelConfig attribute) initial_value (osl_dynamics.inference.initializers.RandomWeightInitializer attribute) (osl_dynamics.inference.initializers.WeightInitializer attribute) (osl_dynamics.inference.layers.LearnableTensorLayer attribute) initial_weights_logged (osl_dynamics.inference.callbacks.TensorBoardCallback attribute) initialization() (osl_dynamics.models.mod_base.ModelBase method) input_shapes (osl_dynamics.data.base.Data property) (osl_dynamics.data.Data property) inputs (osl_dynamics.data.base.Data attribute) (osl_dynamics.data.Data attribute) interval_statistics() (in module osl_dynamics.analysis.post_hoc) intervals() (in module osl_dynamics.analysis.post_hoc) inv_sigma (osl_dynamics.inference.regularizers.MultivariateNormal attribute) InverseCholeskyLayer (class in osl_dynamics.inference.layers) InverseWishart (class in osl_dynamics.inference.regularizers) is_multi_gpu (osl_dynamics.models.mod_base.ModelBase property) J JS (in module osl_dynamics.meeg.report) K keep (osl_dynamics.data.base.Data attribute) (osl_dynamics.data.Data attribute) 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) layer_name (osl_dynamics.inference.callbacks.GumbelSoftmaxAnnealingCallback attribute) layers (osl_dynamics.inference.layers.CorrelationMatricesLayer attribute) (osl_dynamics.inference.layers.CovarianceMatricesLayer attribute) (osl_dynamics.inference.layers.DiagonalMatricesLayer attribute) (osl_dynamics.inference.layers.EmbeddingLayer attribute) (osl_dynamics.inference.layers.InferenceRNNLayer attribute) (osl_dynamics.inference.layers.MatrixLayer attribute) (osl_dynamics.inference.layers.ModelRNNLayer attribute) (osl_dynamics.inference.layers.MultiLayerPerceptronLayer attribute) (osl_dynamics.inference.layers.OscillatorCovarianceMatricesLayer attribute) (osl_dynamics.inference.layers.SoftmaxLayer attribute) (osl_dynamics.inference.layers.VectorsLayer attribute) layout (osl_dynamics.utils.topoplots.Topology attribute) layouts (in module osl_dynamics.files.scanner) lcmv_beamformer() (in module osl_dynamics.meeg.source_recon) leading_zeros() (in module osl_dynamics.utils.misc) learn (osl_dynamics.inference.layers.LearnableTensorLayer attribute) learn_alpha_temperature (osl_dynamics.models.inf_mod_base.VariationalInferenceModelConfig attribute) learn_corrs (osl_dynamics.models.mdynemo.Config attribute) learn_covariances (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) learn_initial_state_probs (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelConfig 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.dyneste.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) learn_stds (osl_dynamics.models.mdynemo.Config attribute) learn_trans_prob (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.post_hoc) (in module osl_dynamics.inference.modes) lifetimes() (in module osl_dynamics.analysis.post_hoc) limit (osl_dynamics.inference.layers.TFRangeLayer attribute) linear_regression() (in module osl_dynamics.utils.sklearn_wrappers) list_dir() (in module osl_dynamics.data.rw) list_means() (in module osl_dynamics.utils.array_ops) list_stds() (in module osl_dynamics.utils.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_memmaps (osl_dynamics.data.base.Data attribute) (osl_dynamics.data.Data attribute) 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.mod_base.ModelBase method) loadmat() (in module osl_dynamics.data.rw) log() (osl_dynamics.utils.logger.MEEGSessionLogger method) log_as_dense (osl_dynamics.inference.callbacks.GradientMonitoringCallback attribute) log_dir (osl_dynamics.utils.logger.MEEGSessionLogger attribute) log_initial (osl_dynamics.inference.callbacks.TensorBoardCallback attribute) logger (in module osl_dynamics) LogLikelihoodLossLayer (class in osl_dynamics.inference.layers) LogNormal (class in osl_dynamics.inference.regularizers) loss_calc (osl_dynamics.models.mod_base.BaseModelConfig attribute) loss_indices (osl_dynamics.inference.callbacks.GradientMonitoringCallback attribute) losses() (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) lr_decay (osl_dynamics.models.mod_base.BaseModelConfig attribute) M m (osl_dynamics.inference.layers.OscillatorCovarianceMatricesLayer attribute) make_dataset() (osl_dynamics.models.mod_base.ModelBase method) MAR (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.obs_mod) 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) mask_file (osl_dynamics.data.base.Data attribute) (osl_dynamics.data.Data attribute) match_covariances() (in module osl_dynamics.inference.modes) match_modes() (in module osl_dynamics.inference.modes) match_vectors() (in module osl_dynamics.inference.modes) MatrixLayer (class in osl_dynamics.inference.layers) max_x (osl_dynamics.utils.topoplots.Topology property) max_y (osl_dynamics.utils.topoplots.Topology property) MaxStatPermutation (class in osl_dynamics.glm) (class in osl_dynamics.glm.permutation) 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.obs_mod) mean_amplitudes() (in module osl_dynamics.analysis.post_hoc) (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.post_hoc) (in module osl_dynamics.inference.modes) mean_lifetimes() (in module osl_dynamics.analysis.post_hoc) (in module osl_dynamics.inference.modes) means_regularizer (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) MEEGSessionLogger (class in osl_dynamics.utils.logger) memmap() (osl_dynamics.utils.misc.MockArray method) min_x (osl_dynamics.utils.topoplots.Topology property) min_y (osl_dynamics.utils.topoplots.Topology property) mixed_state_vectors (osl_dynamics.simulation.hsmm.MixedHSMM_MVN attribute) (osl_dynamics.simulation.MixedHSMM_MVN attribute) 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) mni2mri_flirt_xform_file (osl_dynamics.utils.filenames.SurfaceFilenames attribute) mni_mri_t_file (osl_dynamics.utils.filenames.SurfaceFilenames attribute) 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.MixedSine_MVN attribute) (osl_dynamics.simulation.MSess_HMM_MVN property) (osl_dynamics.simulation.MSess_MixedSine_MVN attribute) (osl_dynamics.simulation.sm.MixedSine_MVN attribute) (osl_dynamics.simulation.sm.MSess_MixedSine_MVN attribute) Model (class in osl_dynamics.models.dive) (class in osl_dynamics.models.dynemo) (class in osl_dynamics.models.dyneste) (class in osl_dynamics.models.hive) (class in osl_dynamics.models.hmm) (class in osl_dynamics.models.hmm_poi) (class in osl_dynamics.models.mdynemo) (class in osl_dynamics.models.sc_dynemo) model (osl_dynamics.analysis.fisher_kernel.FisherKernel attribute) (osl_dynamics.analysis.prediction.ModelSelection attribute) (osl_dynamics.models.mod_base.ModelBase attribute) model_activation (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) model_dropout (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) model_n_layers (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) model_n_units (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) model_name (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.hmm_poi.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.mod_base.BaseModelConfig attribute) (osl_dynamics.models.sc_dynemo.Config attribute) model_normalization (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) model_regularizer (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) model_rnn (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) model_selection() (osl_dynamics.analysis.prediction.ModelSelection method) ModelBase (class in osl_dynamics.models.mod_base) ModelRNNLayer (class in osl_dynamics.inference.layers) models (in module osl_dynamics.models) ModelSelection (class in osl_dynamics.analysis.prediction) module osl_dynamics osl_dynamics.analysis osl_dynamics.analysis.connectivity osl_dynamics.analysis.fisher_kernel osl_dynamics.analysis.post_hoc osl_dynamics.analysis.power osl_dynamics.analysis.prediction osl_dynamics.analysis.spectral osl_dynamics.analysis.static osl_dynamics.analysis.statistics osl_dynamics.analysis.tinda 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.mni152_surfaces osl_dynamics.files.parcellation osl_dynamics.files.scanner osl_dynamics.files.scene osl_dynamics.glm osl_dynamics.glm.base osl_dynamics.glm.ols osl_dynamics.glm.permutation 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.meeg osl_dynamics.meeg.amm osl_dynamics.meeg.maxfilter osl_dynamics.meeg.parallel osl_dynamics.meeg.parcellation osl_dynamics.meeg.preproc osl_dynamics.meeg.report osl_dynamics.meeg.rhino osl_dynamics.meeg.source_recon osl_dynamics.models osl_dynamics.models.dive osl_dynamics.models.dynemo osl_dynamics.models.dyneste osl_dynamics.models.hive osl_dynamics.models.hmm osl_dynamics.models.hmm_poi osl_dynamics.models.inf_mod_base osl_dynamics.models.mdynemo osl_dynamics.models.mod_base osl_dynamics.models.obs_mod osl_dynamics.models.sc_dynemo osl_dynamics.simulation osl_dynamics.simulation.base osl_dynamics.simulation.hmm osl_dynamics.simulation.hsmm osl_dynamics.simulation.obs_mod osl_dynamics.simulation.sm osl_dynamics.utils osl_dynamics.utils.array_ops osl_dynamics.utils.filenames osl_dynamics.utils.logger osl_dynamics.utils.misc osl_dynamics.utils.model osl_dynamics.utils.plotting osl_dynamics.utils.sklearn_wrappers osl_dynamics.utils.topoplots osl_dynamics.utils.workbench moving_average() (in module osl_dynamics.data.processing) (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) mri_file (osl_dynamics.utils.filenames.CoregFilenames attribute) (osl_dynamics.utils.filenames.SurfaceFilenames attribute) mri_lpa_file (osl_dynamics.utils.filenames.CoregFilenames attribute) mri_nasion_file (osl_dynamics.utils.filenames.CoregFilenames attribute) mri_rpa_file (osl_dynamics.utils.filenames.CoregFilenames attribute) mrivoxel_scaledmri_t_file (osl_dynamics.utils.filenames.CoregFilenames attribute) 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.obs_mod) mu (osl_dynamics.inference.regularizers.LogNormal attribute) (osl_dynamics.inference.regularizers.MultivariateNormal attribute) 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.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.obs_mod) N n (osl_dynamics.inference.layers.OscillatorCovarianceMatricesLayer attribute) n_annealing_epochs (osl_dynamics.inference.callbacks.KLAnnealingCallback attribute) n_bottom_level_hmms (osl_dynamics.simulation.HierarchicalHMM_MVN attribute) (osl_dynamics.simulation.hmm.HierarchicalHMM_MVN attribute) n_channels (osl_dynamics.data.base.Data property) (osl_dynamics.data.Data property) (osl_dynamics.inference.layers.TFBroadcastToLayer attribute) (osl_dynamics.inference.regularizers.InverseWishart attribute) (osl_dynamics.inference.regularizers.MarginalInverseWishart attribute) (osl_dynamics.models.mod_base.BaseModelConfig attribute) (osl_dynamics.simulation.HierarchicalHMM_MVN attribute) (osl_dynamics.simulation.hmm.HierarchicalHMM_MVN attribute) (osl_dynamics.simulation.hmm.HMM_MAR attribute) (osl_dynamics.simulation.hmm.HMM_MVN attribute) (osl_dynamics.simulation.hmm.HMM_Poi attribute) (osl_dynamics.simulation.hmm.HMM_TDECovs attribute) (osl_dynamics.simulation.hmm.MDyn_HMM_MVN attribute) (osl_dynamics.simulation.hmm.MSess_HMM_MVN attribute) (osl_dynamics.simulation.HMM_MAR attribute) (osl_dynamics.simulation.HMM_MVN attribute) (osl_dynamics.simulation.HMM_Poi attribute) (osl_dynamics.simulation.HMM_TDECovs attribute) (osl_dynamics.simulation.hsmm.HSMM_MVN attribute) (osl_dynamics.simulation.hsmm.MixedHSMM_MVN attribute) (osl_dynamics.simulation.HSMM_MVN attribute) (osl_dynamics.simulation.MAR attribute) (osl_dynamics.simulation.MDyn_HMM_MVN attribute) (osl_dynamics.simulation.MixedHSMM_MVN attribute) (osl_dynamics.simulation.MixedSine_MVN attribute) (osl_dynamics.simulation.MSess_HMM_MVN attribute) (osl_dynamics.simulation.MSess_MixedSine_MVN attribute) (osl_dynamics.simulation.obs_mod.MAR attribute) (osl_dynamics.simulation.obs_mod.OscillatoryBursts attribute) (osl_dynamics.simulation.obs_mod.TDECovs attribute) (osl_dynamics.simulation.OscillatoryBursts attribute) (osl_dynamics.simulation.sm.MixedSine_MVN attribute) (osl_dynamics.simulation.sm.MSess_MixedSine_MVN attribute) (osl_dynamics.simulation.TDECovs attribute) n_contrasts (osl_dynamics.glm.base.Design property) (osl_dynamics.glm.base.GLM property) (osl_dynamics.glm.GLM property) n_corr_modes (osl_dynamics.models.mdynemo.Config attribute) n_covariances_act (osl_dynamics.simulation.MSess_MVN attribute) (osl_dynamics.simulation.MVN attribute) (osl_dynamics.simulation.obs_mod.MSess_MVN attribute) (osl_dynamics.simulation.obs_mod.MVN attribute) n_cycles (osl_dynamics.inference.callbacks.KLAnnealingCallback attribute) n_embeddings (osl_dynamics.simulation.obs_mod.TDECovs attribute) (osl_dynamics.simulation.TDECovs attribute) n_epochs (osl_dynamics.inference.callbacks.EMADecayCallback attribute) (osl_dynamics.inference.callbacks.GumbelSoftmaxAnnealingCallback attribute) (osl_dynamics.models.mod_base.BaseModelConfig attribute) n_epochs_one_cycle (osl_dynamics.inference.callbacks.KLAnnealingCallback attribute) n_features (osl_dynamics.glm.base.Contrast attribute) (osl_dynamics.glm.base.Design attribute) (osl_dynamics.glm.base.GLM property) (osl_dynamics.glm.GLM property) n_groups (osl_dynamics.simulation.hmm.HMM_OscillatoryBursts attribute) (osl_dynamics.simulation.HMM_OscillatoryBursts attribute) (osl_dynamics.simulation.MSess_MVN attribute) (osl_dynamics.simulation.obs_mod.MSess_MVN attribute) n_gs_annealing_epochs (osl_dynamics.models.dyneste.Config attribute) n_init (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.hmm_poi.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.mod_base.BaseModelConfig attribute) n_init_epochs (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.dynemo.Config attribute) (osl_dynamics.models.dyneste.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.hmm.Config attribute) (osl_dynamics.models.hmm_poi.Config attribute) (osl_dynamics.models.mdynemo.Config attribute) (osl_dynamics.models.mod_base.BaseModelConfig attribute) n_iter (osl_dynamics.analysis.prediction.ModelSelection attribute) n_jobs (osl_dynamics.analysis.prediction.ModelSelection attribute) (osl_dynamics.data.base.Data attribute) (osl_dynamics.data.Data attribute) (osl_dynamics.glm.permutation.Permutation attribute) n_kl_annealing_epochs (osl_dynamics.models.hive.Config attribute) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelConfig attribute) n_mixed_states (osl_dynamics.simulation.hsmm.MixedHSMM_MVN attribute) (osl_dynamics.simulation.MixedHSMM_MVN attribute) n_modes (osl_dynamics.inference.callbacks.DiceCoefficientCallback attribute) (osl_dynamics.inference.layers.TFBroadcastToLayer attribute) (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.HMM_TDECovs attribute) (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.HMM_TDECovs attribute) (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.MixedSine attribute) (osl_dynamics.simulation.MixedSine_MVN attribute) (osl_dynamics.simulation.MSess_HMM_MVN property) (osl_dynamics.simulation.MSess_MixedSine_MVN attribute) (osl_dynamics.simulation.obs_mod.OscillatoryBursts attribute) (osl_dynamics.simulation.obs_mod.TDECovs attribute) (osl_dynamics.simulation.OscillatoryBursts attribute) (osl_dynamics.simulation.sm.MixedSine attribute) (osl_dynamics.simulation.sm.MixedSine_MVN attribute) (osl_dynamics.simulation.sm.MSess_MixedSine_MVN attribute) (osl_dynamics.simulation.TDECovs attribute) n_parcels (osl_dynamics.meeg.parcellation.Parcellation attribute) n_perm (osl_dynamics.glm.permutation.Permutation attribute) n_raw_data_channels (osl_dynamics.data.base.Data attribute) (osl_dynamics.data.Data attribute) n_samples (osl_dynamics.data.base.Data property) (osl_dynamics.data.Data property) (osl_dynamics.glm.base.Design attribute) (osl_dynamics.glm.base.Feature attribute) (osl_dynamics.glm.base.GLM property) (osl_dynamics.glm.GLM property) (osl_dynamics.simulation.base.Simulation attribute) (osl_dynamics.simulation.hmm.HMM_OscillatoryBursts attribute) (osl_dynamics.simulation.hmm.HMM_TDECovs attribute) (osl_dynamics.simulation.HMM_OscillatoryBursts attribute) (osl_dynamics.simulation.HMM_TDECovs attribute) (osl_dynamics.simulation.Simulation attribute) 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) (osl_dynamics.simulation.hmm.MSess_HMM_MVN attribute) (osl_dynamics.simulation.MSess_HMM_MVN attribute) (osl_dynamics.simulation.MSess_MixedSine_MVN attribute) (osl_dynamics.simulation.sm.MSess_MixedSine_MVN attribute) n_states (osl_dynamics.inference.layers.CategoricalLogLikelihoodLossLayer attribute) (osl_dynamics.inference.layers.HiddenMarkovStateInferenceLayer attribute) (osl_dynamics.inference.layers.SeparateLogLikelihoodLayer attribute) (osl_dynamics.inference.layers.SeparatePoissonLogLikelihoodLayer attribute) (osl_dynamics.models.mod_base.BaseModelConfig attribute) (osl_dynamics.simulation.HierarchicalHMM_MVN attribute) (osl_dynamics.simulation.HMM attribute) (osl_dynamics.simulation.hmm.HierarchicalHMM_MVN attribute) (osl_dynamics.simulation.hmm.HMM attribute) (osl_dynamics.simulation.hmm.HMM_MAR attribute) (osl_dynamics.simulation.hmm.HMM_MVN attribute) (osl_dynamics.simulation.hmm.HMM_Poi attribute) (osl_dynamics.simulation.hmm.MDyn_HMM_MVN attribute) (osl_dynamics.simulation.hmm.MSess_HMM_MVN attribute) (osl_dynamics.simulation.HMM_MAR attribute) (osl_dynamics.simulation.HMM_MVN attribute) (osl_dynamics.simulation.HMM_Poi attribute) (osl_dynamics.simulation.hsmm.HSMM_MVN attribute) (osl_dynamics.simulation.hsmm.MixedHSMM_MVN attribute) (osl_dynamics.simulation.HSMM_MVN attribute) (osl_dynamics.simulation.MAR attribute) (osl_dynamics.simulation.MDyn_HMM_MVN attribute) (osl_dynamics.simulation.MixedHSMM_MVN attribute) (osl_dynamics.simulation.MSess_HMM_MVN attribute) (osl_dynamics.simulation.obs_mod.MAR attribute) n_subjects (osl_dynamics.simulation.hmm.HMM_OscillatoryBursts attribute) (osl_dynamics.simulation.hmm.HMM_TDECovs attribute) (osl_dynamics.simulation.HMM_OscillatoryBursts attribute) (osl_dynamics.simulation.HMM_TDECovs attribute) n_subjects_per_group (osl_dynamics.simulation.hmm.HMM_OscillatoryBursts attribute) (osl_dynamics.simulation.HMM_OscillatoryBursts attribute) n_targets (osl_dynamics.glm.base.GLM attribute) (osl_dynamics.glm.GLM attribute) name (osl_dynamics.data.base.SessionLabels attribute) (osl_dynamics.data.SessionLabels attribute) (osl_dynamics.glm.base.Contrast attribute) (osl_dynamics.glm.base.Feature attribute) names (osl_dynamics.inference.callbacks.DiceCoefficientCallback attribute) nested_cross_validation() (osl_dynamics.analysis.prediction.ModelSelection method) 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.meeg.parcellation.Parcellation method) nonzero_coords() (osl_dynamics.meeg.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) nu (osl_dynamics.inference.regularizers.InverseWishart attribute) (osl_dynamics.inference.regularizers.MarginalInverseWishart attribute) NumpyLoader (class in osl_dynamics.utils.misc) O obs_mod (osl_dynamics.simulation.HierarchicalHMM_MVN attribute) (osl_dynamics.simulation.hmm.HierarchicalHMM_MVN attribute) (osl_dynamics.simulation.hmm.HMM_MAR attribute) (osl_dynamics.simulation.hmm.HMM_MVN attribute) (osl_dynamics.simulation.hmm.HMM_Poi attribute) (osl_dynamics.simulation.hmm.HMM_TDECovs attribute) (osl_dynamics.simulation.hmm.MDyn_HMM_MVN attribute) (osl_dynamics.simulation.hmm.MSess_HMM_MVN attribute) (osl_dynamics.simulation.HMM_MAR attribute) (osl_dynamics.simulation.HMM_MVN attribute) (osl_dynamics.simulation.HMM_Poi attribute) (osl_dynamics.simulation.HMM_TDECovs attribute) (osl_dynamics.simulation.hsmm.HSMM_MVN attribute) (osl_dynamics.simulation.hsmm.MixedHSMM_MVN attribute) (osl_dynamics.simulation.HSMM_MVN attribute) (osl_dynamics.simulation.MDyn_HMM_MVN attribute) (osl_dynamics.simulation.MixedHSMM_MVN attribute) (osl_dynamics.simulation.MixedSine_MVN attribute) (osl_dynamics.simulation.MSess_HMM_MVN attribute) (osl_dynamics.simulation.MSess_MixedSine_MVN attribute) (osl_dynamics.simulation.sm.MixedSine_MVN attribute) (osl_dynamics.simulation.sm.MSess_MixedSine_MVN attribute) observation_error (osl_dynamics.simulation.MSess_MVN attribute) (osl_dynamics.simulation.MVN attribute) (osl_dynamics.simulation.obs_mod.MSess_MVN attribute) (osl_dynamics.simulation.obs_mod.MVN attribute) off_diagonal_trans_prob (osl_dynamics.simulation.HSMM attribute) (osl_dynamics.simulation.hsmm.HSMM attribute) on_epoch_begin() (osl_dynamics.inference.callbacks.GumbelSoftmaxAnnealingCallback method) on_epoch_end() (osl_dynamics.inference.callbacks.CheckpointCallback method) (osl_dynamics.inference.callbacks.DiceCoefficientCallback method) (osl_dynamics.inference.callbacks.EMADecayCallback method) (osl_dynamics.inference.callbacks.GradientMonitoringCallback method) (osl_dynamics.inference.callbacks.GumbelSoftmaxAnnealingCallback method) (osl_dynamics.inference.callbacks.KLAnnealingCallback method) (osl_dynamics.inference.callbacks.SaveBestCallback method) (osl_dynamics.inference.callbacks.SummaryStatsCallback method) (osl_dynamics.inference.callbacks.TensorBoardCallback method) on_train_begin() (osl_dynamics.inference.callbacks.TensorBoardCallback 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) order (osl_dynamics.simulation.MAR attribute) (osl_dynamics.simulation.obs_mod.MAR attribute) original_sampling_frequency (osl_dynamics.data.base.Data attribute) (osl_dynamics.data.Data attribute) OscillatorCovarianceMatricesLayer (class in osl_dynamics.inference.layers) OscillatoryBursts (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.obs_mod) osl_dynamics module osl_dynamics.analysis module osl_dynamics.analysis.connectivity module osl_dynamics.analysis.fisher_kernel module osl_dynamics.analysis.post_hoc module osl_dynamics.analysis.power module osl_dynamics.analysis.prediction module osl_dynamics.analysis.spectral module osl_dynamics.analysis.static module osl_dynamics.analysis.statistics module osl_dynamics.analysis.tinda 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.mni152_surfaces module osl_dynamics.files.parcellation module osl_dynamics.files.scanner module osl_dynamics.files.scene module osl_dynamics.glm module osl_dynamics.glm.base module osl_dynamics.glm.ols module osl_dynamics.glm.permutation 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.meeg module osl_dynamics.meeg.amm module osl_dynamics.meeg.maxfilter module osl_dynamics.meeg.parallel module osl_dynamics.meeg.parcellation module osl_dynamics.meeg.preproc module osl_dynamics.meeg.report module osl_dynamics.meeg.rhino module osl_dynamics.meeg.source_recon module osl_dynamics.models module osl_dynamics.models.dive module osl_dynamics.models.dynemo module osl_dynamics.models.dyneste 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.mdynemo module osl_dynamics.models.mod_base module osl_dynamics.models.obs_mod module osl_dynamics.models.sc_dynemo module osl_dynamics.simulation module osl_dynamics.simulation.base module osl_dynamics.simulation.hmm module osl_dynamics.simulation.hsmm module osl_dynamics.simulation.obs_mod module osl_dynamics.simulation.sm module osl_dynamics.utils module osl_dynamics.utils.array_ops module osl_dynamics.utils.filenames module osl_dynamics.utils.logger module osl_dynamics.utils.misc module osl_dynamics.utils.model module osl_dynamics.utils.plotting module osl_dynamics.utils.sklearn_wrappers module osl_dynamics.utils.topoplots module osl_dynamics.utils.workbench module osl_dynamics_cli() (in module osl_dynamics.config_api.pipeline) osl_fit() (in module osl_dynamics.glm.ols) osld_version (osl_dynamics.models.mod_base.ModelBase attribute) OSLFilenames (class in osl_dynamics.utils.filenames) outdir (osl_dynamics.utils.filenames.OSLFilenames attribute) outer (osl_dynamics.utils.model.HTMLTable attribute) (osl_dynamics.utils.model.LatexTable attribute) outer_model (osl_dynamics.inference.callbacks.SummaryStatsCallback attribute) outline (osl_dynamics.utils.topoplots.Topology 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) param (osl_dynamics.inference.layers.SessionParamLayer attribute) params_grid (osl_dynamics.analysis.prediction.ModelSelection attribute) parcel_vector_to_voxel_grid() (in module osl_dynamics.meeg.parcellation) parcellate() (in module osl_dynamics.meeg.parcellation) Parcellation (class in osl_dynamics.meeg.parcellation) parcellation (osl_dynamics.meeg.parcellation.Parcellation attribute) parcellation_file (osl_dynamics.data.base.Data attribute) (osl_dynamics.data.Data attribute) partial_coherence_spectra() (in module osl_dynamics.analysis.spectral) partial_covariances() (in module osl_dynamics.analysis.post_hoc) partial_directed_coherence_spectra() (in module osl_dynamics.analysis.spectral) path (in module osl_dynamics.files.mask) (in module osl_dynamics.files.mni152_surfaces) (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) perm_type (osl_dynamics.glm.permutation.Permutation attribute) Permutation (class in osl_dynamics.glm.permutation) permute_X() (osl_dynamics.glm.permutation.Permutation method) picks (osl_dynamics.data.base.Data attribute) (osl_dynamics.data.Data attribute) PipelineBuilder (class in osl_dynamics.analysis.prediction) plot() (osl_dynamics.meeg.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_channel_stds() (in module osl_dynamics.meeg.preproc) plot_connections() (in module osl_dynamics.utils.plotting) plot_coregistration() (in module osl_dynamics.meeg.rhino) plot_cycle() (in module osl_dynamics.analysis.tinda) plot_data() (osl_dynamics.utils.topoplots.Topology method) plot_design_matrix() (in module osl_dynamics.glm) (in module osl_dynamics.utils.plotting) 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_hmm_summary_stats() (in module osl_dynamics.utils.plotting) plot_ica_components() (in module osl_dynamics.meeg.preproc) plot_line() (in module osl_dynamics.utils.plotting) plot_matrices() (in module osl_dynamics.utils.plotting) plot_parcellation() (in module osl_dynamics.meeg.parcellation) plot_power_maps_from_covariances() (in module osl_dynamics.config_api.wrappers) plot_psd_topo() (in module osl_dynamics.utils.plotting) plot_psds() (in module osl_dynamics.meeg.parcellation) 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_sum_square_time_series() (in module osl_dynamics.meeg.preproc) plot_summary_stats_group_diff() (in module osl_dynamics.utils.plotting) plot_surfaces() (in module osl_dynamics.meeg.rhino) 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) (class in osl_dynamics.simulation.obs_mod) pos_file (osl_dynamics.utils.filenames.OSLFilenames attribute) prediction_dataset (osl_dynamics.inference.callbacks.DiceCoefficientCallback attribute) (osl_dynamics.inference.callbacks.SummaryStatsCallback attribute) predictor_dict (osl_dynamics.analysis.prediction.PipelineBuilder attribute) prefix (osl_dynamics.utils.logger.MEEGSessionLogger attribute) prepare() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) prepared_data_filenames (osl_dynamics.data.base.Data attribute) (osl_dynamics.data.Data attribute) preproc_file (osl_dynamics.utils.filenames.OSLFilenames attribute) print_stats (osl_dynamics.inference.callbacks.GradientMonitoringCallback attribute) psi (osl_dynamics.inference.regularizers.InverseWishart attribute) R random_state (osl_dynamics.analysis.prediction.ModelSelection attribute) random_state_time_course_initialization() (osl_dynamics.models.dyneste.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.dyneste.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.post_hoc) 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) recommend_model_config() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data 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) regularizer (osl_dynamics.inference.layers.LearnableTensorLayer attribute) (osl_dynamics.inference.layers.MultiLayerPerceptronLayer attribute) regularizer_strength (osl_dynamics.inference.layers.MultiLayerPerceptronLayer attribute) reinitialize_layer_weights() (in module osl_dynamics.inference.initializers) reinitialize_model_weights() (in module osl_dynamics.inference.initializers) reject_by_annotation (osl_dynamics.data.base.Data attribute) (osl_dynamics.data.Data attribute) relative_activation (osl_dynamics.simulation.MixedSine attribute) (osl_dynamics.simulation.sm.MixedSine attribute) remove_nan_rows() (in module osl_dynamics.glm.ols) remove_stray_headshape_points() (in module osl_dynamics.meeg.rhino) render() (in module osl_dynamics.utils.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.inf_mod_base.VariationalInferenceModelBase method) (osl_dynamics.models.mod_base.ModelBase method) reverse_pca() (in module osl_dynamics.analysis.post_hoc) reweight_alphas() (in module osl_dynamics.inference.modes) reweight_mtc() (in module osl_dynamics.inference.modes) rho (osl_dynamics.simulation.obs_mod.TDECovs attribute) (osl_dynamics.simulation.TDECovs attribute) riemannian_distance() (in module osl_dynamics.inference.metrics) RNNLayer() (in module osl_dynamics.inference.layers) roi_centers() (osl_dynamics.meeg.parcellation.Parcellation method) root (osl_dynamics.utils.filenames.CoregFilenames attribute) (osl_dynamics.utils.filenames.SurfaceFilenames attribute) rough_square_axes() (in module osl_dynamics.utils.plotting) rows (osl_dynamics.utils.model.HTMLTable attribute) (osl_dynamics.utils.model.LatexTable attribute) (osl_dynamics.utils.model.Table attribute) run() (in module osl_dynamics.meeg.parallel) run_maxfilter() (in module osl_dynamics.meeg.maxfilter) 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.dyneste.Model method) sample_dataset (osl_dynamics.inference.callbacks.GradientMonitoringCallback attribute) sample_state_time_course() (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) sampling_frequency (osl_dynamics.data.base.Data attribute) (osl_dynamics.data.Data attribute) (osl_dynamics.inference.callbacks.SummaryStatsCallback attribute) (osl_dynamics.inference.layers.OscillatorCovarianceMatricesLayer attribute) (osl_dynamics.models.sc_dynemo.Config attribute) (osl_dynamics.simulation.hmm.HMM_OscillatoryBursts attribute) (osl_dynamics.simulation.HMM_OscillatoryBursts attribute) (osl_dynamics.simulation.MixedSine attribute) (osl_dynamics.simulation.obs_mod.OscillatoryBursts attribute) (osl_dynamics.simulation.OscillatoryBursts attribute) (osl_dynamics.simulation.sm.MixedSine attribute) 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_as_fif() (in module osl_dynamics.meeg.parcellation) save_best_after (osl_dynamics.inference.callbacks.SaveBestCallback attribute) save_config() (osl_dynamics.models.mod_base.ModelBase method) save_coregistration_files() (in module osl_dynamics.meeg.rhino) save_freq (osl_dynamics.inference.callbacks.CheckpointCallback attribute) save_interactive() (in module osl_dynamics.analysis.connectivity) save_preparation() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) save_qc_plots() (in module osl_dynamics.meeg.parcellation) (in module osl_dynamics.meeg.preproc) save_tfrecord() (in module osl_dynamics.data.tf) save_tfrecord_dataset() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) SaveBestCallback (class in osl_dynamics.inference.callbacks) scale_factor (osl_dynamics.inference.layers.GammaExponentialKLDivergenceLayer attribute) scale_surfaces_to_headshape() (in module osl_dynamics.meeg.rhino) scaler_dict (osl_dynamics.analysis.prediction.PipelineBuilder attribute) scoring (osl_dynamics.analysis.prediction.ModelSelection attribute) search_type (osl_dynamics.analysis.prediction.ModelSelection attribute) 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) SeparatePoissonLogLikelihoodLayer (class in osl_dynamics.inference.layers) sequence_length (osl_dynamics.models.mod_base.BaseModelConfig attribute) session (osl_dynamics.utils.logger.MEEGSessionLogger 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_corrs() (osl_dynamics.models.mdynemo.Model method) set_corrs_regularizer() (in module osl_dynamics.models.obs_mod) set_covariances() (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.dyneste.Model method) (osl_dynamics.models.hive.Model method) (osl_dynamics.models.hmm.Model method) set_covariances_regularizer() (in module osl_dynamics.models.obs_mod) set_cv() (osl_dynamics.analysis.prediction.ModelSelection method) 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_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.logger) set_means() (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.dyneste.Model method) (osl_dynamics.models.hive.Model method) (osl_dynamics.models.hmm.Model method) (osl_dynamics.models.mdynemo.Model method) set_means_covariances() (osl_dynamics.models.dynemo.Model method) (osl_dynamics.models.dyneste.Model method) (osl_dynamics.models.hive.Model method) (osl_dynamics.models.hmm.Model method) set_means_regularizer() (in module osl_dynamics.models.obs_mod) set_means_stds_corrs() (osl_dynamics.models.mdynemo.Model method) set_model() (osl_dynamics.inference.callbacks.GumbelSoftmaxAnnealingCallback method) set_n_iter() (osl_dynamics.analysis.prediction.ModelSelection 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.dyneste.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_params_grid() (osl_dynamics.analysis.prediction.ModelSelection 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_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.dyneste.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_scoring() (osl_dynamics.analysis.prediction.ModelSelection method) set_stds() (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.inf_mod_base.MarkovStateInferenceModelBase method) setup() (in module osl_dynamics.utils.workbench) setup_fsl() (in module osl_dynamics.utils) (in module osl_dynamics.utils.misc) shape (osl_dynamics.inference.layers.LearnableTensorLayer attribute) (osl_dynamics.inference.layers.TFZerosLayer attribute) (osl_dynamics.utils.misc.MockArray attribute) show() (in module osl_dynamics.utils.plotting) sigma (osl_dynamics.inference.regularizers.LogNormal attribute) (osl_dynamics.inference.regularizers.MultivariateNormal attribute) simple_moving_average() (in module osl_dynamics.analysis.post_hoc) simulate_data() (osl_dynamics.simulation.MAR method) (osl_dynamics.simulation.MDyn_MVN method) (osl_dynamics.simulation.MVN method) (osl_dynamics.simulation.obs_mod.MAR method) (osl_dynamics.simulation.obs_mod.MDyn_MVN method) (osl_dynamics.simulation.obs_mod.MVN method) (osl_dynamics.simulation.obs_mod.OscillatoryBursts method) (osl_dynamics.simulation.obs_mod.Poisson method) (osl_dynamics.simulation.obs_mod.TDECovs method) (osl_dynamics.simulation.OscillatoryBursts method) (osl_dynamics.simulation.Poisson method) (osl_dynamics.simulation.TDECovs method) simulate_multi_session_data() (osl_dynamics.simulation.MSess_MVN method) (osl_dynamics.simulation.obs_mod.MSess_MVN method) simulate_session_data() (osl_dynamics.simulation.MSess_MVN method) (osl_dynamics.simulation.obs_mod.MSess_MVN method) Simulation (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.base) single_subject_initialization() (osl_dynamics.models.dyneste.Model method) (osl_dynamics.models.inf_mod_base.VariationalInferenceModelBase method) slice_length() (in module osl_dynamics.utils.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.utils.array_ops) slope (osl_dynamics.inference.callbacks.GumbelSoftmaxAnnealingCallback attribute) sm (osl_dynamics.simulation.MixedSine_MVN attribute) (osl_dynamics.simulation.MSess_MixedSine_MVN attribute) (osl_dynamics.simulation.sm.MixedSine_MVN attribute) (osl_dynamics.simulation.sm.MSess_MixedSine_MVN attribute) snr (osl_dynamics.simulation.hmm.HMM_OscillatoryBursts attribute) (osl_dynamics.simulation.HMM_OscillatoryBursts attribute) (osl_dynamics.simulation.obs_mod.OscillatoryBursts attribute) (osl_dynamics.simulation.OscillatoryBursts attribute) SoftmaxLayer (class in osl_dynamics.inference.layers) spatial_embeddings_dim (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.hive.Config attribute) (osl_dynamics.simulation.MSess_MVN attribute) (osl_dynamics.simulation.obs_mod.MSess_MVN 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) src_dir (osl_dynamics.utils.filenames.OSLFilenames attribute) 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) standardize_features (osl_dynamics.glm.base.Design attribute) (osl_dynamics.glm.base.DesignConfig attribute) (osl_dynamics.glm.DesignConfig attribute) start_temperature (osl_dynamics.inference.callbacks.GumbelSoftmaxAnnealingCallback attribute) state_activations() (in module osl_dynamics.analysis.post_hoc) state_time_course (osl_dynamics.simulation.HierarchicalHMM_MVN attribute) (osl_dynamics.simulation.hmm.HierarchicalHMM_MVN attribute) (osl_dynamics.simulation.hmm.HMM_MAR attribute) (osl_dynamics.simulation.hmm.HMM_MVN attribute) (osl_dynamics.simulation.hmm.HMM_OscillatoryBursts property) (osl_dynamics.simulation.hmm.HMM_Poi attribute) (osl_dynamics.simulation.hmm.HMM_TDECovs property) (osl_dynamics.simulation.hmm.MDyn_HMM_MVN attribute) (osl_dynamics.simulation.hmm.MSess_HMM_MVN attribute) (osl_dynamics.simulation.HMM_MAR attribute) (osl_dynamics.simulation.HMM_MVN attribute) (osl_dynamics.simulation.HMM_OscillatoryBursts property) (osl_dynamics.simulation.HMM_Poi attribute) (osl_dynamics.simulation.HMM_TDECovs property) (osl_dynamics.simulation.hsmm.HSMM_MVN attribute) (osl_dynamics.simulation.hsmm.MixedHSMM_MVN attribute) (osl_dynamics.simulation.HSMM_MVN attribute) (osl_dynamics.simulation.MDyn_HMM_MVN attribute) (osl_dynamics.simulation.MixedHSMM_MVN attribute) (osl_dynamics.simulation.MSess_HMM_MVN attribute) stay_prob (osl_dynamics.simulation.hmm.HMM_OscillatoryBursts attribute) (osl_dynamics.simulation.HMM_OscillatoryBursts attribute) std (osl_dynamics.inference.initializers.NormalCorrelationCholeskyInitializer attribute) (osl_dynamics.inference.initializers.NormalDiagonalInitializer attribute) (osl_dynamics.inference.initializers.NormalIdentityCholeskyInitializer attribute) (osl_dynamics.inference.initializers.RandomWeightInitializer attribute) std_brain (osl_dynamics.utils.filenames.SurfaceFilenames attribute) std_brain_bigfov (osl_dynamics.utils.filenames.SurfaceFilenames attribute) stds (osl_dynamics.simulation.MDyn_MVN attribute) (osl_dynamics.simulation.obs_mod.MDyn_MVN attribute) stds_epsilon (osl_dynamics.models.mdynemo.Config attribute) stds_regularizer (osl_dynamics.models.mdynemo.Config attribute) step_offset (osl_dynamics.inference.callbacks.GradientMonitoringCallback attribute) (osl_dynamics.inference.callbacks.TensorBoardCallback attribute) STEPS (in module osl_dynamics.meeg.report) store_dir (osl_dynamics.data.base.Data attribute) (osl_dynamics.data.Data attribute) strategy (osl_dynamics.models.mod_base.BaseModelConfig attribute) strength (osl_dynamics.inference.regularizers.InverseWishart attribute) (osl_dynamics.inference.regularizers.LogNormal attribute) (osl_dynamics.inference.regularizers.MarginalInverseWishart attribute) (osl_dynamics.inference.regularizers.MultivariateNormal attribute) SumLogLikelihoodLossLayer (class in osl_dynamics.inference.layers) summary() (osl_dynamics.glm.base.Contrast method) (osl_dynamics.glm.base.Design method) (osl_dynamics.glm.base.Feature method) (osl_dynamics.glm.base.GLM method) (osl_dynamics.glm.GLM method) (osl_dynamics.glm.permutation.Permutation method) summary_stats (osl_dynamics.inference.callbacks.SummaryStatsCallback attribute) summary_string() (osl_dynamics.models.mod_base.ModelBase method) summary_table() (osl_dynamics.models.mod_base.ModelBase method) SummaryStatsCallback (class in osl_dynamics.inference.callbacks) 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) SurfaceFilenames (class in osl_dynamics.utils.filenames) surfaces (osl_dynamics.utils.filenames.OSLFilenames attribute) surfaces_dir (osl_dynamics.utils.filenames.OSLFilenames attribute) surfs (in module osl_dynamics.utils.workbench) switching_rates() (in module osl_dynamics.analysis.post_hoc) (in module osl_dynamics.inference.modes) system_call() (in module osl_dynamics.utils.misc) T Table (class in osl_dynamics.utils.model) target_dims (osl_dynamics.glm.base.GLM attribute) (osl_dynamics.glm.GLM attribute) tau (osl_dynamics.inference.layers.OscillatorCovarianceMatricesLayer attribute) 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) TDECovs (class in osl_dynamics.simulation) (class in osl_dynamics.simulation.obs_mod) temperature (osl_dynamics.inference.layers.SampleGumbelSoftmaxDistributionLayer attribute) temporal_filter() (in module osl_dynamics.data.processing) tensor (osl_dynamics.inference.initializers.CopyTensorInitializer attribute) TensorBoardCallback (class in osl_dynamics.inference.callbacks) tex_escape() (in module osl_dynamics.utils.model) TFAddLayer (class in osl_dynamics.inference.layers) tfb (in module osl_dynamics.inference.initializers) (in module osl_dynamics.inference.layers) (in module osl_dynamics.inference.regularizers) TFBroadcastToLayer (class in osl_dynamics.inference.layers) TFConcatLayer (class in osl_dynamics.inference.layers) TFConstantLayer (class in osl_dynamics.inference.layers) TFGatherLayer (class in osl_dynamics.inference.layers) TFMatMulLayer (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) TFZerosLayer (class in osl_dynamics.inference.layers) th (osl_dynamics.utils.model.HTMLTable attribute) theta_std_epsilon (osl_dynamics.models.inf_mod_base.VariationalInferenceModelConfig attribute) threshold() (in module osl_dynamics.analysis.connectivity) time_axis_first (osl_dynamics.data.base.Data attribute) (osl_dynamics.data.Data attribute) time_embed() (in module osl_dynamics.data.processing) time_series (osl_dynamics.simulation.base.Simulation attribute) (osl_dynamics.simulation.HierarchicalHMM_MVN attribute) (osl_dynamics.simulation.hmm.HierarchicalHMM_MVN attribute) (osl_dynamics.simulation.hmm.HMM_MAR attribute) (osl_dynamics.simulation.hmm.HMM_MVN attribute) (osl_dynamics.simulation.hmm.HMM_OscillatoryBursts property) (osl_dynamics.simulation.hmm.HMM_Poi attribute) (osl_dynamics.simulation.hmm.HMM_TDECovs property) (osl_dynamics.simulation.hmm.MDyn_HMM_MVN attribute) (osl_dynamics.simulation.hmm.MSess_HMM_MVN attribute) (osl_dynamics.simulation.HMM_MAR attribute) (osl_dynamics.simulation.HMM_MVN attribute) (osl_dynamics.simulation.HMM_OscillatoryBursts property) (osl_dynamics.simulation.HMM_Poi attribute) (osl_dynamics.simulation.HMM_TDECovs property) (osl_dynamics.simulation.hsmm.HSMM_MVN attribute) (osl_dynamics.simulation.hsmm.MixedHSMM_MVN attribute) (osl_dynamics.simulation.HSMM_MVN attribute) (osl_dynamics.simulation.MDyn_HMM_MVN attribute) (osl_dynamics.simulation.MixedHSMM_MVN attribute) (osl_dynamics.simulation.MixedSine_MVN attribute) (osl_dynamics.simulation.MSess_HMM_MVN attribute) (osl_dynamics.simulation.MSess_MixedSine_MVN attribute) (osl_dynamics.simulation.Simulation attribute) (osl_dynamics.simulation.sm.MixedSine_MVN attribute) (osl_dynamics.simulation.sm.MSess_MixedSine_MVN attribute) 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) top_eig() (in module osl_dynamics.utils.misc) Topology (class in osl_dynamics.utils.topoplots) topoplot() (in module osl_dynamics.utils.plotting) tr (osl_dynamics.utils.model.HTMLTable attribute) train() (osl_dynamics.models.mod_base.ModelBase method) 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) train_mdynemo() (in module osl_dynamics.config_api.wrappers) trans_prob_prior (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelConfig attribute) trans_prob_update_delay (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelConfig attribute) trans_prob_update_forget (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelConfig attribute) trim_time_series() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) true_freqs (osl_dynamics.simulation.hmm.HMM_OscillatoryBursts attribute) (osl_dynamics.simulation.HMM_OscillatoryBursts attribute) (osl_dynamics.simulation.obs_mod.OscillatoryBursts attribute) (osl_dynamics.simulation.OscillatoryBursts attribute) true_tde_covs (osl_dynamics.simulation.obs_mod.TDECovs attribute) (osl_dynamics.simulation.TDECovs attribute) tstats (osl_dynamics.glm.base.GLM property) (osl_dynamics.glm.GLM property) (osl_dynamics.glm.permutation.Permutation property) U unit_norm (osl_dynamics.inference.layers.EmbeddingLayer attribute) unit_norm_embeddings (osl_dynamics.models.dive.Config attribute) (osl_dynamics.models.hive.Config attribute) update_step() (osl_dynamics.inference.optimizers.ExponentialMovingAverage method) use_tfrecord (osl_dynamics.data.base.Data attribute) (osl_dynamics.data.Data attribute) V validate() (in module osl_dynamics.utils.array_ops) (osl_dynamics.glm.base.Design method) validate_alpha_parameters() (osl_dynamics.models.inf_mod_base.VariationalInferenceModelConfig method) validate_data() (osl_dynamics.analysis.prediction.ModelSelection method) (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.obs_mod.MSess_MVN method) validate_extra_channels() (osl_dynamics.data.base.Data method) (osl_dynamics.data.Data method) validate_gs_annealing_parameters() (osl_dynamics.models.dyneste.Config method) validate_hmm_parameters() (osl_dynamics.models.inf_mod_base.MarkovStateInferenceModelConfig 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_model() (osl_dynamics.analysis.prediction.PipelineBuilder method) validate_observation_model_parameters() (osl_dynamics.models.dive.Config method) (osl_dynamics.models.dynemo.Config method) (osl_dynamics.models.dyneste.Config method) (osl_dynamics.models.hive.Config method) (osl_dynamics.models.hmm.Config method) (osl_dynamics.models.hmm_poi.Config method) (osl_dynamics.models.mdynemo.Config method) validate_rnn_parameters() (osl_dynamics.models.dive.Config method) (osl_dynamics.models.dynemo.Config method) (osl_dynamics.models.dyneste.Config method) (osl_dynamics.models.mdynemo.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) values (osl_dynamics.data.base.SessionLabels attribute) (osl_dynamics.data.SessionLabels attribute) (osl_dynamics.glm.base.Contrast attribute) (osl_dynamics.glm.base.Feature attribute) (osl_dynamics.inference.layers.TFConstantLayer attribute) variance (osl_dynamics.inference.layers.OscillatorCovarianceMatricesLayer 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) verbose (osl_dynamics.analysis.prediction.ModelSelection attribute) vertical_lines (osl_dynamics.utils.model.LatexTable attribute), [1] visualise() (in module osl_dynamics.utils.workbench) volume_to_surface() (in module osl_dynamics.utils.workbench) W wavelet() (in module osl_dynamics.analysis.spectral) WeightInitializer (class in osl_dynamics.inference.initializers) weights() (osl_dynamics.meeg.parcellation.Parcellation method) welch_spectra() (in module osl_dynamics.analysis.spectral) (in module osl_dynamics.analysis.static) width (osl_dynamics.utils.topoplots.Topology property) write() (osl_dynamics.utils.logger.MEEGSessionLogger method) writer (osl_dynamics.inference.callbacks.GradientMonitoringCallback attribute) X X (osl_dynamics.glm.base.GLM attribute) (osl_dynamics.glm.GLM attribute)
