deepof
Index
Index
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B
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C
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D
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E
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F
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G
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H
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I
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K
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L
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M
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N
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O
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P
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R
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S
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T
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V
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__init__() (deepof.data.Coordinates method)
,
[1]
(deepof.data.Project method)
,
[1]
(deepof.data.TableDict method)
,
[1]
(deepof.hypermodels.Contrastive method)
,
[1]
(deepof.hypermodels.VaDE method)
,
[1]
(deepof.hypermodels.VQVAE method)
,
[1]
(deepof.model_utils.ClusterControl method)
,
[1]
(deepof.model_utils.CustomStopper method)
,
[1]
(deepof.model_utils.ExponentialLearningRate method)
,
[1]
(deepof.model_utils.ProbabilisticDecoder method)
,
[1]
(deepof.model_utils.TransformerDecoder method)
,
[1]
(deepof.model_utils.TransformerDecoderLayer method)
,
[1]
(deepof.model_utils.TransformerEncoder method)
,
[1]
(deepof.model_utils.TransformerEncoderLayer method)
,
[1]
(deepof.models.Classifier method)
,
[1]
(deepof.models.Contrastive method)
,
[1]
(deepof.models.GaussianMixtureLatent method)
,
[1]
(deepof.models.VaDE method)
,
[1]
(deepof.models.VectorQuantizer method)
,
[1]
(deepof.models.VQVAE method)
,
[1]
A
align_deepof_kinematics_with_unsupervised_labels() (in module deepof.post_hoc)
align_trajectories() (in module deepof.utils)
angle() (in module deepof.utils)
animate_skeleton() (in module deepof.visuals)
annotate_time_chunks() (in module deepof.post_hoc)
annotate_video() (in module deepof.visuals)
arena_parameter_extraction() (in module deepof.utils)
automatically_recognize_arena() (in module deepof.utils)
B
bp2polar() (in module deepof.utils)
bpart_distance() (in module deepof.utils)
C
chunk_cv_splitter() (in module deepof.post_hoc)
chunk_summary_statistics() (in module deepof.post_hoc)
Classifier (class in deepof.models)
climb_wall() (in module deepof.annotation_utils)
close_double_contact() (in module deepof.annotation_utils)
close_single_contact() (in module deepof.annotation_utils)
closest_side() (in module deepof.utils)
cluster_frequencies_regularizer() (in module deepof.model_utils)
cluster_transition_matrix() (in module deepof.utils)
ClusterControl (class in deepof.model_utils)
compute_animal_presence_mask() (in module deepof.utils)
compute_areas() (in module deepof.utils)
compute_dist() (in module deepof.utils)
compute_kmeans_loss() (in module deepof.model_utils)
compute_shannon_entropy() (in module deepof.model_utils)
compute_steady_state() (in module deepof.post_hoc)
compute_transition_matrix_per_condition() (in module deepof.post_hoc)
compute_UMAP() (in module deepof.post_hoc)
condition_distance_binning() (in module deepof.post_hoc)
connect_mouse() (in module deepof.utils)
Contrastive (class in deepof.hypermodels)
(class in deepof.models)
Coordinates (class in deepof.data)
create_look_ahead_mask() (in module deepof.model_utils)
create_masks() (in module deepof.model_utils)
create_padding_mask() (in module deepof.model_utils)
CustomStopper (class in deepof.model_utils)
D
dcl_loss() (in module deepof.model_utils)
deepof
module
deepof.annotation_utils
module
deepof.data
module
deepof.deepof_train_embeddings
module
deepof.hypermodels
module
deepof.model_utils
module
deepof.models
module
deepof.post_hoc
module
deepof.utils
module
deepof.visuals
module
E
edges_to_weighted_adj() (in module deepof.utils)
embedding_model_fitting() (in module deepof.model_utils)
embedding_per_video() (in module deepof.model_utils)
enrichment_across_conditions() (in module deepof.post_hoc)
enumerate_all_bridges() (in module deepof.utils)
explain_clusters() (in module deepof.post_hoc)
ExponentialLearningRate (class in deepof.model_utils)
export_annotated_video() (in module deepof.visuals)
extract_polygonal_arena_coordinates() (in module deepof.utils)
F
fc_loss() (in module deepof.model_utils)
filter_columns() (in module deepof.utils)
filter_short_bouts() (in module deepof.utils)
find_learning_rate() (in module deepof.model_utils)
fit_ellipse_to_polygon() (in module deepof.utils)
fit_normative_global_model() (in module deepof.post_hoc)
following_path() (in module deepof.annotation_utils)
frame_corners() (in module deepof.annotation_utils)
full_outlier_mask() (in module deepof.utils)
G
GaussianMixtureLatent (class in deepof.models)
get_aggregated_embedding() (in module deepof.post_hoc)
get_angles() (in module deepof.model_utils)
get_arenas() (in module deepof.utils)
get_callbacks() (in module deepof.model_utils)
get_hard_counts() (in module deepof.model_utils)
get_hparameters() (in module deepof.annotation_utils)
get_k_nearest_neighbors() (in module deepof.model_utils)
get_recurrent_block() (in module deepof.model_utils)
get_recurrent_decoder() (in module deepof.models)
get_recurrent_encoder() (in module deepof.models)
get_TCN_decoder() (in module deepof.models)
get_TCN_encoder() (in module deepof.models)
get_time_on_cluster() (in module deepof.post_hoc)
get_transformer_decoder() (in module deepof.models)
get_transformer_encoder() (in module deepof.models)
get_transitions() (in module deepof.post_hoc)
get_vade() (in module deepof.models)
get_vqvae() (in module deepof.models)
gmm_compute() (in module deepof.utils)
gmm_model_selection() (in module deepof.utils)
H
hard_loss() (in module deepof.model_utils)
heatmap() (in module deepof.visuals)
huddle() (in module deepof.annotation_utils)
I
interpolate_outliers() (in module deepof.utils)
iterative_imputation() (in module deepof.utils)
K
kleinberg() (in module deepof.utils)
L
load_project() (in module deepof.data)
load_segmentation_model() (in module deepof.utils)
load_table() (in module deepof.utils)
log_hyperparameters() (in module deepof.model_utils)
look_around() (in module deepof.annotation_utils)
M
mask_outliers() (in module deepof.utils)
max_behaviour() (in module deepof.annotation_utils)
module
deepof
deepof.annotation_utils
deepof.data
deepof.deepof_train_embeddings
deepof.hypermodels
deepof.model_utils
deepof.models
deepof.post_hoc
deepof.utils
deepof.visuals
moving_average() (in module deepof.utils)
N
nce_loss() (in module deepof.model_utils)
O
output_cluster_video() (in module deepof.visuals)
output_unsupervised_annotated_video() (in module deepof.visuals)
output_videos_per_cluster() (in module deepof.visuals)
outside_ellipse() (in module deepof.annotation_utils)
P
plot_arena() (in module deepof.visuals)
plot_cluster_detection_performance() (in module deepof.visuals)
plot_distance_between_conditions() (in module deepof.visuals)
plot_embeddings() (in module deepof.visuals)
plot_enrichment() (in module deepof.visuals)
plot_gantt() (in module deepof.visuals)
plot_heatmaps() (in module deepof.visuals)
plot_lr_vs_loss() (in module deepof.model_utils)
plot_normative_log_likelihood() (in module deepof.visuals)
plot_shap_swarm_per_cluster() (in module deepof.visuals)
plot_stationary_entropy() (in module deepof.visuals)
plot_transitions() (in module deepof.visuals)
positional_encoding() (in module deepof.model_utils)
ProbabilisticDecoder (class in deepof.model_utils)
Project (class in deepof.data)
R
recluster() (in module deepof.post_hoc)
rename_track_bps() (in module deepof.utils)
retrieve_corners_from_image() (in module deepof.utils)
rolling_speed() (in module deepof.utils)
rolling_window() (in module deepof.utils)
rotate() (in module deepof.annotation_utils)
(in module deepof.utils)
rupture_per_experiment() (in module deepof.utils)
S
scale_animal() (in module deepof.utils)
scale_table() (in module deepof.utils)
select_contrastive_loss() (in module deepof.model_utils)
select_time_bin() (in module deepof.post_hoc)
separation_between_conditions() (in module deepof.post_hoc)
set_missing_animals() (in module deepof.utils)
simplify_polygon() (in module deepof.utils)
smooth_boolean_array() (in module deepof.utils)
smooth_mult_trajectory() (in module deepof.utils)
sniff_object() (in module deepof.annotation_utils)
split_with_breakpoints() (in module deepof.utils)
str2bool() (in module deepof.utils)
supervised_tagging() (in module deepof.annotation_utils)
T
tab2polar() (in module deepof.utils)
TableDict (class in deepof.data)
tag_annotated_frames() (in module deepof.visuals)
tagged_video_output() (in module deepof.annotation_utils)
train_supervised_cluster_detectors() (in module deepof.post_hoc)
TransformerDecoder (class in deepof.model_utils)
TransformerDecoderLayer (class in deepof.model_utils)
TransformerEncoder (class in deepof.model_utils)
TransformerEncoderLayer (class in deepof.model_utils)
tune_search() (in module deepof.model_utils)
V
VaDE (class in deepof.hypermodels)
(class in deepof.models)
VectorQuantizer (class in deepof.models)
VQVAE (class in deepof.hypermodels)
(class in deepof.models)
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