Index

A

add_3D_pose_to_fig() (in module keypoint_moseq.viz) add_3D_pose_to_plotly_fig() (in module keypoint_moseq.viz)

apply_model() (in module keypoint_moseq.fitting) apply_syllable_mapping() (in module keypoint_moseq.util)

C

check_config_validity() (in module keypoint_moseq.io) check_nan_proportions() (in module keypoint_moseq.util)

check_video_paths() (in module keypoint_moseq.util) crop_image() (in module keypoint_moseq.viz)

D

downsample_timepoints() (in module keypoint_moseq.util)

E

estimate_sigmasq_loc() (in module keypoint_moseq.util) estimate_syllable_marginals() (in module keypoint_moseq.fitting)

expected_marginal_likelihoods() (in module keypoint_moseq.fitting) extract_results() (in module keypoint_moseq.io)

F

filter_angle() (in module keypoint_moseq.util) filter_centroids_headings() (in module keypoint_moseq.util) filtered_derivative() (in module keypoint_moseq.util)

find_matching_videos() (in module keypoint_moseq.util) find_medoid_distance_outliers() (in module keypoint_moseq.util) fit_model() (in module keypoint_moseq.fitting) format_data() (in module keypoint_moseq.util)

G

generate_config() (in module keypoint_moseq.io) generate_grid_movies() (in module keypoint_moseq.viz) generate_syllable_mapping() (in module keypoint_moseq.util) generate_trajectory_plots() (in module keypoint_moseq.viz) get_centroids_headings() (in module keypoint_moseq.util) get_distance_to_medoid() (in module keypoint_moseq.util)

get_edges() (in module keypoint_moseq.util) get_grid_movie_window_size() (in module keypoint_moseq.viz) get_instance_trajectories() (in module keypoint_moseq.util) get_limits() (in module keypoint_moseq.viz) get_syllable_instances() (in module keypoint_moseq.util) get_typical_trajectories() (in module keypoint_moseq.util) grid_movie() (in module keypoint_moseq.viz)

H

hierarchical_clustering_order() (in module keypoint_moseq.viz)

I

init_model() (in module keypoint_moseq.fitting) initialize_3D_plot() (in module keypoint_moseq.viz)

interpolate_along_axis() (in module keypoint_moseq.util) interpolate_keypoints() (in module keypoint_moseq.util)

K

keypoint_moseq.calibration module keypoint_moseq.fitting module keypoint_moseq.io module

keypoint_moseq.util module keypoint_moseq.viz module

L

list_files_with_exts() (in module keypoint_moseq.util) load_checkpoint() (in module keypoint_moseq.io) load_config() (in module keypoint_moseq.io) load_hdf5() (in module keypoint_moseq.io)

load_keypoints() (in module keypoint_moseq.io) load_pca() (in module keypoint_moseq.io) load_results() (in module keypoint_moseq.io) load_sampled_frames() (in module keypoint_moseq.calibration)

M

matplotlib_colormap_to_plotly() (in module keypoint_moseq.viz) module keypoint_moseq.calibration keypoint_moseq.fitting keypoint_moseq.io keypoint_moseq.util keypoint_moseq.viz

N

noise_calibration() (in module keypoint_moseq.calibration)

np_io() (in module keypoint_moseq.util)

O

outlier_removal() (in module keypoint_moseq.util)

overlay_keypoints_on_image() (in module keypoint_moseq.viz) overlay_keypoints_on_video() (in module keypoint_moseq.viz)

P

pad_along_axis() (in module keypoint_moseq.util) permute_cyclic() (in module keypoint_moseq.util) plot_confusion_matrix() (in module keypoint_moseq.viz) plot_duration_distribution() (in module keypoint_moseq.viz) plot_eml_scores() (in module keypoint_moseq.viz) plot_kappa_scan() (in module keypoint_moseq.viz) plot_keypoint_traces() (in module keypoint_moseq.util) plot_medoid_distance_outliers() (in module keypoint_moseq.util) plot_pcs() (in module keypoint_moseq.viz)

plot_pcs_3D() (in module keypoint_moseq.viz) plot_pose() (in module keypoint_moseq.viz) plot_poses_3D() (in module keypoint_moseq.viz) plot_progress() (in module keypoint_moseq.viz) plot_scree() (in module keypoint_moseq.viz) plot_similarity_dendrogram() (in module keypoint_moseq.viz) plot_syllable_frequencies() (in module keypoint_moseq.viz) plot_trajectories() (in module keypoint_moseq.viz) plot_trajectories_3D() (in module keypoint_moseq.viz) print_dims_to_explain_variance() (in module keypoint_moseq.util)

R

reindex_by_bodyparts() (in module keypoint_moseq.util)

reindex_syllables_in_checkpoint() (in module keypoint_moseq.io)

S

sample_error_frames() (in module keypoint_moseq.calibration) sample_instances() (in module keypoint_moseq.util) save_annotations() (in module keypoint_moseq.calibration) save_hdf5() (in module keypoint_moseq.io) save_keypoints() (in module keypoint_moseq.io)

save_params() (in module keypoint_moseq.calibration) save_pca() (in module keypoint_moseq.io) save_results_as_csv() (in module keypoint_moseq.io) setup_project() (in module keypoint_moseq.io) StopResampling syllable_similarity() (in module keypoint_moseq.util)

U

update_config() (in module keypoint_moseq.io)

update_hypparams() (in module keypoint_moseq.fitting)

W

write_video_clip() (in module keypoint_moseq.viz)