Index

_

__bind_key__ (src.schema_model.ClusteringMethod attribute) (src.schema_model.ClusteringResult attribute) (src.schema_model.Dataset attribute) (src.schema_model.DimReductionMethod attribute) (src.schema_model.DimReductionResult attribute) (src.schema_model.EmbeddingMethod attribute) (src.schema_model.EmbeddingResult attribute) (src.schema_model.User attribute) __tablename__ (src.schema_model.ClusteringMethod attribute) (src.schema_model.ClusteringResult attribute) (src.schema_model.Dataset attribute) (src.schema_model.DimReductionMethod attribute) (src.schema_model.DimReductionResult attribute) (src.schema_model.EmbeddingMethod attribute) (src.schema_model.EmbeddingResult attribute) (src.schema_model.User attribute) _add_bottleneck() (vae.autoencoder.VAE method) _add_conv_layer() (vae.autoencoder.VAE method) _add_conv_layers() (vae.autoencoder.VAE method) _add_conv_transpose_layer() (vae.autoencoder.VAE method) _add_conv_transpose_layers() (vae.autoencoder.VAE method) _add_decoder_input() (vae.autoencoder.VAE method) _add_decoder_output() (vae.autoencoder.VAE method) _add_dense_layer() (vae.autoencoder.VAE method)

_add_encoder_input() (vae.autoencoder.VAE method) _add_reshape_layer() (vae.autoencoder.VAE method) _build() (vae.autoencoder.VAE method) _build_autoencoder() (vae.autoencoder.VAE method) _build_decoder() (vae.autoencoder.VAE method) _build_encoder() (vae.autoencoder.VAE method) _calculate_combined_loss() (vae.autoencoder.VAE method) _calculate_reconstruction_loss() (vae.autoencoder.VAE method) _compute_spectrogram() (in module src.embeddings.vae) _create_folder_if_it_doesnt_exist() (vae.autoencoder.VAE method) _explore() (in module src.pages.annotate.sampling) _get_decoder() (in module vae_xprize) _get_embedding_results() (in module src.utils.task_manager.blocking.clustering) _get_encoder() (in module vae_xprize) _get_pickled_embeddings() (in module src.utils.task_manager.blocking.clustering) _model_input (vae.autoencoder.VAE attribute) _num_conv_layers (vae.autoencoder.VAE attribute) _refine() (in module src.pages.annotate.sampling) _save_embedding_metadata_to_db() (src.embeddings.BaseEmbedding method) _save_parameters() (vae.autoencoder.VAE method) _save_weights() (vae.autoencoder.VAE method) _shape_before_bottleneck (vae.autoencoder.VAE attribute) _split_audio_into_chunks() (in module src.embeddings) _update_spectrogram() (in module src.pages.annotate.callbacks)

A

AcousticIndices (class in src.embeddings.acoustic_indices) Affinity (class in src.clustering.affinity) API_KEY (in module src.utils.settings)

APP_DEBUG (in module src.utils.settings) APP_HOST (in module src.utils.settings) APP_PORT (in module src.utils.settings) average_based (src.visualizations.cluster_temporal_histogram.ClusterTemporalHist attribute)

B

BaseClustering (class in src.clustering) BaseDimensionalityReduction (class in src.dimensionality_reduction) BaseEmbedding (class in src.embeddings) BaseEvaluation (class in src.evaluations) BaseVisualization (class in src.visualizations)

batch_size (src.embeddings.vae.VAEEmbedding attribute) beta_kl (src.embeddings.vae.VAEEmbedding attribute) (vae_xprize.VAE attribute) beta_reconst (vae_xprize.VAE attribute) bind (in module src.gunicorn_config) BirdnetEmbedding (class in src.embeddings.birdnet)

C

calculate_entropy() (src.evaluations.embedding_evaluation.EmbeddingsEvaluation method) calculate_explained_variance() (src.evaluations.embedding_evaluation.EmbeddingsEvaluation method) call() (vae.autoencoder.KLDivergenceLayer method) (vae_xprize.SamplingLayer method) (vae_xprize.VAE method) check_audio_path() (in module src.pages.home.callbacks) check_create() (in module src.pages.home.callbacks) check_embedding_model() (in module src.pages.home.callbacks) check_pipeline_completion() (src.evaluations.BaseEvaluation method) check_project_name() (in module src.pages.home.callbacks) check_socket() (in module src.utils.extensions) clip_duration (src.embeddings.BaseEmbedding attribute) cluster_labels (src.visualizations.BaseVisualization attribute) clusterer (src.clustering.affinity.Affinity attribute) (src.clustering.dbscan.DBSCANClustering attribute) (src.clustering.hdbscan.HDBSCANClustering attribute) (src.clustering.kmeans.KMeansClustering attribute) (src.clustering.optics.OpticsClustering attribute) (src.clustering.spectral.SPECTRALClustering attribute) clustering_method_name (src.evaluations.BaseEvaluation attribute) (src.visualizations.BaseVisualization attribute) clustering_result (src.schema_model.DimReductionResult attribute) clustering_result_id (src.schema_model.DimReductionResult attribute) ClusteringEvaluation (class in src.evaluations.clustering_evaluation)

ClusteringMethod (class in src.schema_model) ClusteringResult (class in src.schema_model) ClusterTemporalHist (class in src.visualizations.cluster_temporal_histogram) ClusterTimeGrid (class in src.visualizations.cluster_time_grid) compile() (vae.autoencoder.VAE method) compute_clusters() (in module src.utils.task_manager.blocking.clustering) compute_embeddings() (in module src.utils.task_manager.blocking.embeddings) compute_spectral_features() (in module src.embeddings.acoustic_indices) compute_spectrograms() (src.embeddings.vae.VAEEmbedding method) conv_filters (vae.autoencoder.VAE attribute) conv_kernels (vae.autoencoder.VAE attribute) conv_strides (vae.autoencoder.VAE attribute) create_app() (in module src.app) create_modal() (in module src.pages.explore.layout) create_model_mil() (in module src.pages.annotate.model) create_numeric_time() (src.visualizations.time_series_plot.TimeSeries method) create_server() (in module src.utils.extensions) created_at (src.schema_model.ClusteringMethod attribute) (src.schema_model.ClusteringResult attribute) (src.schema_model.Dataset attribute) (src.schema_model.DimReductionMethod attribute) (src.schema_model.DimReductionResult attribute) (src.schema_model.EmbeddingMethod attribute) (src.schema_model.EmbeddingResult attribute) cwd (in module src.utils.settings)

D

dask_client_address (in module src.app) data (in module src.pages.explore.callbacks) (src.clustering.BaseClustering attribute) (src.dimensionality_reduction.BaseDimensionalityReduction attribute) (src.embeddings.BaseEmbedding attribute) (src.evaluations.BaseEvaluation attribute) Dataset (class in src.schema_model) dataset (src.schema_model.EmbeddingResult attribute) dataset_id (src.clustering.BaseClustering attribute) (src.schema_model.EmbeddingResult attribute) dataset_name (src.clustering.BaseClustering attribute) (src.embeddings.BaseEmbedding attribute) (src.schema_model.Dataset attribute)

db_score() (src.evaluations.clustering_evaluation.ClusteringEvaluation method) DBSCANClustering (class in src.clustering.dbscan) decoder (vae.autoencoder.VAE attribute) (vae_xprize.VAE attribute) DEV_TOOLS_PROPS_CHECK (in module src.utils.settings) dim_red_method_name (src.visualizations.BaseVisualization attribute) dim_reducer (src.dimensionality_reduction.pca.PCA attribute) (src.dimensionality_reduction.tsne.TSNE attribute) (src.dimensionality_reduction.umap_reducer.UmapReducer attribute) DimReductionMethod (class in src.schema_model) DimReductionResult (class in src.schema_model) dotenv_path (in module src.utils.settings)

E

embed_single_clip() (in module src.pages) embedding (src.schema_model.ClusteringResult attribute) embedding_id (src.clustering.BaseClustering attribute) (src.schema_model.EmbeddingResult attribute) embedding_method (src.clustering.BaseClustering attribute) embedding_method_name (src.evaluations.BaseEvaluation attribute) (src.visualizations.BaseVisualization attribute) embedding_result_id (src.schema_model.ClusteringResult attribute) EmbeddingMethod (class in src.schema_model) EmbeddingResult (class in src.schema_model) embeddings (src.clustering.BaseClustering attribute) (src.embeddings.BaseEmbedding attribute) (src.visualizations.BaseVisualization attribute)

EmbeddingsEvaluation (class in src.evaluations.embedding_evaluation) encoder (vae.autoencoder.VAE attribute) (vae_xprize.VAE attribute) epochs (src.embeddings.vae.VAEEmbedding attribute) evaluate() (src.evaluations.clustering_evaluation.ClusteringEvaluation method) (src.evaluations.embedding_evaluation.EmbeddingsEvaluation method) evaluate_classifier() (src.evaluations.embedding_evaluation.EmbeddingsEvaluation method) evaluation_result (src.evaluations.BaseEvaluation attribute) evaluation_results (src.schema_model.ClusteringResult attribute) (src.schema_model.EmbeddingResult attribute) extract_evaluation_results() (in module src.pages.explore.callbacks) extract_hour() (src.evaluations.BaseEvaluation method) extract_location() (src.evaluations.BaseEvaluation method)

F

fetch_embedding_and_clustering_methods() (in module src.pages.explore.callbacks) file_path (src.schema_model.ClusteringResult attribute) (src.schema_model.EmbeddingResult attribute) fit() (src.clustering.optics.OpticsClustering method)

fit_predict() (src.clustering.BaseClustering method) fit_transform() (src.dimensionality_reduction.pca.PCA method) (src.dimensionality_reduction.tsne.TSNE method) (src.dimensionality_reduction.umap_reducer.UmapReducer method)

G

gen_clips() (in module src.pages.home.callbacks) gen_embeddings() (in module src.pages.home.callbacks) gen_queue() (in module src.pages.home.callbacks) gen_tables() (in module src.pages.home.callbacks) get_audio_playback() (in module src.pages.annotate.callbacks) get_clustering_model() (in module src.clustering) get_dr_model() (in module src.dimensionality_reduction)

get_embedding_model() (in module src.utils.utils) get_embeddings_for_audio() (in module src.pages) get_list_files() (in module src.pages) get_model() (in module src.pages.annotate.model) get_path_dataset() (src.embeddings.BaseEmbedding method) get_sample() (in module src.pages.annotate.sampling) glob_audio_dataset() (in module src.utils)

H

HDBSCANClustering (class in src.clustering.hdbscan) hyperparameters (src.schema_model.ClusteringResult attribute) (src.schema_model.DimReductionResult attribute) (src.schema_model.EmbeddingResult attribute)

I

id (src.schema_model.ClusteringMethod attribute) (src.schema_model.ClusteringResult attribute) (src.schema_model.Dataset attribute) (src.schema_model.EmbeddingMethod attribute) (src.schema_model.EmbeddingResult attribute) (src.schema_model.User attribute)

init_project() (in module src.pages.home.callbacks) input_shape (vae.autoencoder.VAE attribute) is_selected (src.schema_model.Dataset attribute)

K

kl_loss_tracker (vae_xprize.VAE attribute) KLDivergenceLayer (class in vae.autoencoder)

KMeansClustering (class in src.clustering.kmeans) kw_spectrograms (src.embeddings.vae.VAEEmbedding attribute)

L

labels (src.clustering.BaseClustering attribute) last_changed (src.schema_model.ClusteringResult attribute) (src.schema_model.EmbeddingResult attribute) latent_dim (src.embeddings.vae.VAEEmbedding attribute) latent_space_dim (vae.autoencoder.VAE attribute) layout (in module src.components.footer) (in module src.pages.login) (in module src.pages.logout) (in module src.pages.register) layout() (in module src.pages.annotate.layout) (in module src.pages.explore.layout) (in module src.pages.home.layout) learning_rate (src.embeddings.vae.VAEEmbedding attribute) list_existing_datasets() (in module src.pages.explore.callbacks) list_existing_methods() (in module src.pages.explore.callbacks) list_of_audio_files (src.embeddings.BaseEmbedding attribute) load() (vae.autoencoder.VAE class method) load_audio_files_with_tf_dataset() (in module src.pages) load_data() (src.clustering.BaseClustering method) (src.dimensionality_reduction.BaseDimensionalityReduction method) (src.evaluations.BaseEvaluation method) (src.visualizations.BaseVisualization method) load_figures() (in module src.pages.explore.callbacks) load_file_paths() (src.visualizations.BaseVisualization method) load_model() (src.embeddings.acoustic_indices.AcousticIndices method) (src.embeddings.BaseEmbedding method) (src.embeddings.birdnet.BirdnetEmbedding method) (src.embeddings.vae.VAEEmbedding method)

load_user() (in module src.app) load_weights() (vae.autoencoder.VAE method) logged_in_info() (in module src.components.login) logged_out_info (in module src.components.login) logger (in module src.app) (in module src.dimensionality_reduction) (in module src.embeddings) (in module src.embeddings.vae) (in module src.evaluations) (in module src.extensions) (in module src.pages) (in module src.pages.annotate.callbacks) (in module src.pages.annotate.sampling) (in module src.pages.explore.layout) (in module src.pages.home) (in module src.pages.home.callbacks) (in module src.pages.home.layout) (in module src.utils.extensions), [1] (in module src.utils.task_manager.blocking.clustering) (in module src.utils.task_manager.blocking.embeddings) login_button_click() (in module src.app) login_card (in module src.components.login) login_info (in module src.components.login) login_location (in module src.components.login) login_manager (in module src.extensions) login_required_layout() (in module src.pages)

M

method (src.schema_model.ClusteringResult attribute) (src.schema_model.DimReductionResult attribute) (src.schema_model.EmbeddingResult attribute) method_id (src.schema_model.ClusteringResult attribute) (src.schema_model.DimReductionMethod attribute) (src.schema_model.DimReductionResult attribute) method_name (src.schema_model.ClusteringMethod attribute) (src.schema_model.DimReductionMethod attribute) (src.schema_model.EmbeddingMethod attribute) metrics (vae_xprize.VAE property) model (src.embeddings.vae.VAEEmbedding attribute) (src.evaluations.embedding_evaluation.EmbeddingsEvaluation attribute) (vae.autoencoder.VAE attribute) model_path (src.embeddings.BaseEmbedding attribute) module src src.app src.assets src.clustering src.clustering.affinity src.clustering.dbscan src.clustering.hdbscan src.clustering.kmeans src.clustering.optics src.clustering.spectral src.components src.components.footer src.components.login src.components.navbar src.dimensionality_reduction src.dimensionality_reduction.pca src.dimensionality_reduction.tsne src.dimensionality_reduction.umap_reducer src.embeddings src.embeddings.acoustic_indices src.embeddings.birdnet src.embeddings.vae src.evaluations src.evaluations.clustering_evaluation src.evaluations.embedding_evaluation src.extensions src.gunicorn_config src.pages src.pages.annotate src.pages.annotate.callbacks src.pages.annotate.layout src.pages.annotate.model src.pages.annotate.sampling src.pages.explore src.pages.explore.callbacks src.pages.explore.layout src.pages.home src.pages.home.callbacks src.pages.home.layout src.pages.login src.pages.logout src.pages.register src.schema_model src.utils src.utils.extensions src.utils.settings src.utils.task_manager src.utils.task_manager.blocking src.utils.task_manager.blocking.clustering src.utils.task_manager.blocking.embeddings src.utils.utils src.visualizations src.visualizations.cluster_temporal_histogram src.visualizations.cluster_time_grid src.visualizations.rose_plot src.visualizations.state_space_visualization src.visualizations.time_series_plot vae vae.autoencoder vae_xprize

N

n_components (src.dimensionality_reduction.BaseDimensionalityReduction attribute) (src.dimensionality_reduction.pca.PCA attribute) (src.dimensionality_reduction.tsne.TSNE attribute) (src.dimensionality_reduction.umap_reducer.UmapReducer attribute)

navbar (in module src.components.navbar)

O

OpticsClustering (class in src.clustering.optics)

P

parse_datetime_from_filename() (src.visualizations.BaseVisualization method) password (src.schema_model.User attribute) path_audio (src.schema_model.Dataset attribute) path_dataset (src.embeddings.BaseEmbedding attribute) PCA (class in src.dimensionality_reduction.pca) pipeline_steps (in module src.pages.explore.callbacks) plot() (src.visualizations.cluster_temporal_histogram.ClusterTemporalHist method) (src.visualizations.cluster_time_grid.ClusterTimeGrid method) (src.visualizations.rose_plot.RosePlot method) (src.visualizations.state_space_visualization.StateSpaceVis method) (src.visualizations.time_series_plot.TimeSeries method)

process() (src.embeddings.acoustic_indices.AcousticIndices method) (src.embeddings.BaseEmbedding method) (src.embeddings.birdnet.BirdnetEmbedding method) (src.embeddings.vae.VAEEmbedding method) process_annotation() (in module src.pages.annotate.sampling) process_pipeline_create_click() (in module src.pages.explore.callbacks)

R

read_audio_dataset() (src.embeddings.BaseEmbedding method) reconstruct() (vae.autoencoder.VAE method) reconstruction_loss_tracker (vae_xprize.VAE attribute) reconstruction_loss_weight (vae.autoencoder.VAE attribute) reduction_file_path (src.schema_model.DimReductionResult attribute) register_callbacks() (in module src.pages.annotate.callbacks)

register_dataset() (in module src.pages.home) register_user() (in module src.app) replenish_queue() (in module src.pages.annotate.sampling) resolution (src.visualizations.time_series_plot.TimeSeries attribute) result_id (src.schema_model.DimReductionResult attribute) RosePlot (class in src.visualizations.rose_plot) run_pipeline() (in module src.pages.explore.callbacks)

S

sample_point_from_normal_distribution() (in module vae.autoencoder) sampling_rate (src.embeddings.BaseEmbedding attribute) (src.embeddings.birdnet.BirdnetEmbedding attribute) SamplingLayer (class in vae_xprize) save() (vae.autoencoder.VAE method) save_embeddings() (src.embeddings.BaseEmbedding method) save_labels() (src.clustering.BaseClustering method) save_results() (src.evaluations.BaseEvaluation method) save_transformed_data() (src.dimensionality_reduction.BaseDimensionalityReduction method) scale_data() (src.clustering.BaseClustering method) (src.dimensionality_reduction.BaseDimensionalityReduction method) (src.evaluations.BaseEvaluation method) scan_projects() (in module src.pages.home.callbacks) serve_layout() (in module src.app) server (in module src.utils.extensions) sil_score() (src.evaluations.clustering_evaluation.ClusteringEvaluation method) SPECTRALClustering (class in src.clustering.spectral) spectrograms (src.embeddings.vae.VAEEmbedding attribute) split_single_audio() (in module src.pages) sqlalchemy_db (in module src.extensions) src module src.app module src.assets module src.clustering module src.clustering.affinity module src.clustering.dbscan module src.clustering.hdbscan module src.clustering.kmeans module src.clustering.optics module src.clustering.spectral module src.components module src.components.footer module src.components.login module src.components.navbar module src.dimensionality_reduction module src.dimensionality_reduction.pca module src.dimensionality_reduction.tsne module src.dimensionality_reduction.umap_reducer module src.embeddings module src.embeddings.acoustic_indices module src.embeddings.birdnet module src.embeddings.vae module src.evaluations module src.evaluations.clustering_evaluation module

src.evaluations.embedding_evaluation module src.extensions module src.gunicorn_config module src.pages module src.pages.annotate module src.pages.annotate.callbacks module src.pages.annotate.layout module src.pages.annotate.model module src.pages.annotate.sampling module src.pages.explore module src.pages.explore.callbacks module src.pages.explore.layout module src.pages.home module src.pages.home.callbacks module src.pages.home.layout module src.pages.login module src.pages.logout module src.pages.register module src.schema_model module src.utils module src.utils.extensions module src.utils.settings module src.utils.task_manager module src.utils.task_manager.blocking module src.utils.task_manager.blocking.clustering module src.utils.task_manager.blocking.embeddings module src.utils.utils module src.visualizations module src.visualizations.cluster_temporal_histogram module src.visualizations.cluster_time_grid module src.visualizations.rose_plot module src.visualizations.state_space_visualization module src.visualizations.time_series_plot module StateSpaceVis (class in src.visualizations.state_space_visualization) summary() (vae.autoencoder.VAE method)

T

task_key (src.schema_model.ClusteringResult attribute) (src.schema_model.EmbeddingResult attribute) task_state (src.schema_model.ClusteringResult attribute) (src.schema_model.EmbeddingResult attribute) test_step() (vae_xprize.VAE method) TimeSeries (class in src.visualizations.time_series_plot) to_predict (src.evaluations.embedding_evaluation.EmbeddingsEvaluation attribute) toggle_collapse() (in module src.pages.home.callbacks)

toggle_load_modal() (in module src.pages.explore.callbacks) toggle_new_modal() (in module src.pages.explore.callbacks) total_loss_tracker (vae_xprize.VAE attribute) train() (vae.autoencoder.VAE method) train_model() (in module src.pages.annotate.model) (src.embeddings.vae.VAEEmbedding method) train_step() (vae_xprize.VAE method) transformed_data (src.dimensionality_reduction.BaseDimensionalityReduction attribute) TSNE (class in src.dimensionality_reduction.tsne)

U

UmapReducer (class in src.dimensionality_reduction.umap_reducer) update_authentication_status() (in module src.components.login) update_database_clustering_result() (in module src.utils.task_manager.blocking.clustering) update_database_embedding_result() (in module src.utils.task_manager.blocking.embeddings) update_db_methods() (in module src.pages.explore.callbacks) update_navbar() (in module src.components.navbar)

update_options_project() (in module src.pages.home.callbacks) update_project_summary() (in module src.pages.home.callbacks) update_selected_dataset() (in module src.pages.home.callbacks) update_visualization_content() (in module src.pages.explore.callbacks) User (class in src.schema_model) username (src.schema_model.User attribute)

V

vae module VAE (class in vae.autoencoder) (class in vae_xprize) vae.autoencoder module

vae_xprize module VAEEmbedding (class in src.embeddings.vae) variance_threshold (src.evaluations.embedding_evaluation.EmbeddingsEvaluation attribute)

W

workers (in module src.gunicorn_config)

X

x_axis (src.visualizations.time_series_plot.TimeSeries attribute)

Y

y_variables (src.visualizations.time_series_plot.TimeSeries attribute)