Index

_

__init__() (megabouts.classification.classification.BoutClassifier method) (megabouts.classification.classification.TailBouts method) (megabouts.classification.transformer_network.BoutsDataset method) (megabouts.classification.transformer_network.ContinuousPositionalEncoding method) (megabouts.classification.transformer_network.TransAm method) (megabouts.pipeline.freely_swimming_pipeline.EthogramFullTracking method) (megabouts.pipeline.freely_swimming_pipeline.EthogramHeadTracking method) (megabouts.pipeline.freely_swimming_pipeline.FullTrackingPipeline method) (megabouts.pipeline.freely_swimming_pipeline.HeadTrackingPipeline method) (megabouts.pipeline.head_restrained_pipeline.HeadRestrainedPipeline method) (megabouts.preprocessing.tail_preprocessing.TailPreprocessing method) (megabouts.preprocessing.tail_preprocessing.TailPreprocessingResult method) (megabouts.preprocessing.traj_preprocessing.TrajPreprocessing method) (megabouts.preprocessing.traj_preprocessing.TrajPreprocessingResult method) (megabouts.segmentation.segmentation.Segmentation method) (megabouts.segmentation.segmentation.SegmentationResult method) (megabouts.segmentation.segmentation.TailSegmentation method) (megabouts.segmentation.segmentation.TrajSegmentation method) (megabouts.tracking_data.tracking_data.FullTrackingData method) (megabouts.tracking_data.tracking_data.HeadTrackingData method) (megabouts.tracking_data.tracking_data.TailTrackingData method) (megabouts.tracking_data.tracking_data.TrackingConfig method)

A

align_traj_array() (in module megabouts.segmentation.segmentation) (megabouts.segmentation.segmentation.SegmentationResult method)

B

BoutClassifier (class in megabouts.classification.classification)

BoutsDataset (class in megabouts.classification.transformer_network)

C

classify_bouts() (megabouts.pipeline.freely_swimming_pipeline.FullTrackingPipeline method) (megabouts.pipeline.freely_swimming_pipeline.HeadTrackingPipeline method) clean_using_pca() (megabouts.preprocessing.tail_preprocessing.TailPreprocessing static method) compute_angles_from_keypoints() (in module megabouts.tracking_data.convert_tracking) compute_baseline() (megabouts.preprocessing.tail_preprocessing.TailPreprocessing static method) compute_df() (megabouts.pipeline.freely_swimming_pipeline.EthogramFullTracking method) (megabouts.pipeline.freely_swimming_pipeline.EthogramHeadTracking method) compute_kinematic_activity() (megabouts.preprocessing.traj_preprocessing.TrajPreprocessing static method)

compute_sampling_input() (megabouts.classification.classification.BoutClassifier method) compute_sparse_coding() (megabouts.pipeline.head_restrained_pipeline.HeadRestrainedPipeline method) compute_speed() (megabouts.preprocessing.traj_preprocessing.TrajPreprocessing static method) compute_tail_speed() (megabouts.preprocessing.tail_preprocessing.TailPreprocessing static method) compute_time_series() (megabouts.pipeline.freely_swimming_pipeline.EthogramFullTracking method) (megabouts.pipeline.freely_swimming_pipeline.EthogramHeadTracking method) ContinuousPositionalEncoding (class in megabouts.classification.transformer_network) convert_tail_angle_to_keypoints() (in module megabouts.tracking_data.convert_tracking)

E

EthogramFullTracking (class in megabouts.pipeline.freely_swimming_pipeline) EthogramHeadTracking (class in megabouts.pipeline.freely_swimming_pipeline) extract_bouts() (megabouts.classification.classification.BoutClassifier method)

extract_bouts_full_tracking() (megabouts.classification.classification.BoutClassifier method) extract_bouts_head_tracking() (megabouts.classification.classification.BoutClassifier method) extract_tail_array() (megabouts.segmentation.segmentation.SegmentationResult method) extract_traj_array() (megabouts.segmentation.segmentation.SegmentationResult method)

F

filter_logit() (megabouts.classification.classification.BoutClassifier method) find_inter_peak_min() (megabouts.segmentation.segmentation.TrajSegmentation static method) find_onset_offset_around_peak() (megabouts.segmentation.segmentation.TrajSegmentation static method) forward() (megabouts.classification.transformer_network.ContinuousPositionalEncoding method) (megabouts.classification.transformer_network.TransAm method) from_config() (megabouts.segmentation.segmentation.Segmentation class method) from_keypoints() (megabouts.tracking_data.tracking_data.FullTrackingData class method) (megabouts.tracking_data.tracking_data.HeadTrackingData class method) (megabouts.tracking_data.tracking_data.TailTrackingData class method) (megabouts.tracking_data.tracking_data.TrackingData class method)

from_posture() (megabouts.tracking_data.tracking_data.FullTrackingData class method) (megabouts.tracking_data.tracking_data.HeadTrackingData class method) (megabouts.tracking_data.tracking_data.TailTrackingData class method) (megabouts.tracking_data.tracking_data.TrackingData class method) FullTrackingData (class in megabouts.tracking_data.tracking_data) FullTrackingPipeline (class in megabouts.pipeline.freely_swimming_pipeline)

H

HeadRestrainedPipeline (class in megabouts.pipeline.head_restrained_pipeline)

HeadTrackingData (class in megabouts.tracking_data.tracking_data) HeadTrackingPipeline (class in megabouts.pipeline.freely_swimming_pipeline)

I

initialize_parameters_for_pipeline() (megabouts.pipeline.freely_swimming_pipeline.FullTrackingPipeline method) (megabouts.pipeline.freely_swimming_pipeline.HeadTrackingPipeline method) (megabouts.pipeline.head_restrained_pipeline.HeadRestrainedPipeline method)

interp_tail_nan() (megabouts.preprocessing.tail_preprocessing.TailPreprocessing static method) interp_traj_nan() (megabouts.preprocessing.traj_preprocessing.TrajPreprocessing static method) interpolate_tail_angle() (in module megabouts.tracking_data.convert_tracking) interpolate_tail_keypoint() (in module megabouts.tracking_data.convert_tracking)

L

load_classifier() (megabouts.classification.classification.BoutClassifier method)

load_example_data() (in module megabouts.tracking_data.load_example)

M

megabouts module megabouts.classification module megabouts.classification.classification module megabouts.classification.transformer_network module megabouts.pipeline module megabouts.pipeline.freely_swimming_pipeline module megabouts.pipeline.head_restrained_pipeline module megabouts.preprocessing module megabouts.preprocessing.tail_preprocessing module megabouts.preprocessing.traj_preprocessing module megabouts.segmentation module megabouts.segmentation.segmentation module

megabouts.tracking_data module megabouts.tracking_data.convert_tracking module megabouts.tracking_data.load_example module megabouts.tracking_data.tracking_data module module megabouts megabouts.classification megabouts.classification.classification megabouts.classification.transformer_network megabouts.pipeline megabouts.pipeline.freely_swimming_pipeline megabouts.pipeline.head_restrained_pipeline megabouts.preprocessing megabouts.preprocessing.tail_preprocessing megabouts.preprocessing.traj_preprocessing megabouts.segmentation megabouts.segmentation.segmentation megabouts.tracking_data megabouts.tracking_data.convert_tracking megabouts.tracking_data.load_example megabouts.tracking_data.tracking_data

O

one_euro_filter() (megabouts.preprocessing.traj_preprocessing.TrajPreprocessing static method)

P

prepare_tensor_input() (megabouts.classification.classification.BoutClassifier method) preprocess_tail() (megabouts.pipeline.freely_swimming_pipeline.FullTrackingPipeline method) (megabouts.pipeline.head_restrained_pipeline.HeadRestrainedPipeline method) preprocess_tail_angle() (megabouts.preprocessing.tail_preprocessing.TailPreprocessing method)

preprocess_tail_df() (megabouts.preprocessing.tail_preprocessing.TailPreprocessing method) preprocess_traj() (megabouts.pipeline.freely_swimming_pipeline.FullTrackingPipeline method) (megabouts.pipeline.freely_swimming_pipeline.HeadTrackingPipeline method) preprocess_traj_df() (megabouts.preprocessing.traj_preprocessing.TrajPreprocessing method) process_results() (megabouts.classification.classification.BoutClassifier method)

R

run() (megabouts.pipeline.freely_swimming_pipeline.FullTrackingPipeline method) (megabouts.pipeline.freely_swimming_pipeline.HeadTrackingPipeline method) (megabouts.pipeline.head_restrained_pipeline.HeadRestrainedPipeline method)

run_classification() (megabouts.classification.classification.BoutClassifier method)

S

segment() (megabouts.pipeline.freely_swimming_pipeline.FullTrackingPipeline method) (megabouts.segmentation.segmentation.Segmentation method) (megabouts.segmentation.segmentation.TailSegmentation method) (megabouts.segmentation.segmentation.TrajSegmentation method) segment_tail() (megabouts.pipeline.head_restrained_pipeline.HeadRestrainedPipeline method)

segment_traj() (megabouts.pipeline.freely_swimming_pipeline.HeadTrackingPipeline method) Segmentation (class in megabouts.segmentation.segmentation) SegmentationResult (class in megabouts.segmentation.segmentation) set_HB1() (megabouts.segmentation.segmentation.SegmentationResult method) smooth_tail_angle() (megabouts.preprocessing.tail_preprocessing.TailPreprocessing static method)

T

tail_df (megabouts.tracking_data.tracking_data.FullTrackingData property) (megabouts.tracking_data.tracking_data.TailTrackingData property) tail_keypoints_df (megabouts.tracking_data.tracking_data.FullTrackingData property) TailBouts (class in megabouts.classification.classification) TailPreprocessing (class in megabouts.preprocessing.tail_preprocessing) TailPreprocessingResult (class in megabouts.preprocessing.tail_preprocessing) TailSegmentation (class in megabouts.segmentation.segmentation) TailTrackingData (class in megabouts.tracking_data.tracking_data)

TrackingConfig (class in megabouts.tracking_data.tracking_data) TrackingData (class in megabouts.tracking_data.tracking_data) traj_df (megabouts.tracking_data.tracking_data.FullTrackingData property) (megabouts.tracking_data.tracking_data.HeadTrackingData property) TrajPreprocessing (class in megabouts.preprocessing.traj_preprocessing) TrajPreprocessingResult (class in megabouts.preprocessing.traj_preprocessing) TrajSegmentation (class in megabouts.segmentation.segmentation) TransAm (class in megabouts.classification.transformer_network)