Index

M

module stage01_data_entry.scripts.check_input stage01_data_entry.scripts.enter_data_template stage01_data_entry.scripts.plot_traces stage02_processing.scripts.background_subtraction stage02_processing.scripts.check_input stage02_processing.scripts.detrending stage02_processing.scripts.frequency_filter stage02_processing.scripts.logMUA_estimation stage02_processing.scripts.normalization stage02_processing.scripts.phase_transform stage02_processing.scripts.plot_processed_trace stage02_processing.scripts.roi_selection stage02_processing.scripts.spatial_downsampling stage02_processing.scripts.subsampling stage02_processing.scripts.zscore stage03_trigger_detection.scripts.check_input stage03_trigger_detection.scripts.hilbert_phase stage03_trigger_detection.scripts.minima stage03_trigger_detection.scripts.plot_trigger_times stage03_trigger_detection.scripts.remove_short_states stage03_trigger_detection.scripts.threshold stage04_wave_detection.scripts.check_input stage04_wave_detection.scripts.critical_points stage04_wave_detection.scripts.merge_wave_definitions stage04_wave_detection.scripts.optical_flow stage04_wave_detection.scripts.plot_clustering stage04_wave_detection.scripts.trigger_clustering stage04_wave_detection.scripts.wave_mode_clustering stage05_channel_wave_characterization.scripts.annotations stage05_channel_wave_characterization.scripts.check_input stage05_channel_wave_characterization.scripts.direction_local stage05_channel_wave_characterization.scripts.flow_direction_local stage05_channel_wave_characterization.scripts.inter_wave_interval_local stage05_channel_wave_characterization.scripts.merge_dataframes stage05_channel_wave_characterization.scripts.velocity_local stage05_wave_characterization.scripts.annotations stage05_wave_characterization.scripts.check_input stage05_wave_characterization.scripts.direction_planar stage05_wave_characterization.scripts.duration stage05_wave_characterization.scripts.inter_wave_interval stage05_wave_characterization.scripts.label_planar stage05_wave_characterization.scripts.merge_dataframes stage05_wave_characterization.scripts.number_of_triggers stage05_wave_characterization.scripts.time_stamp stage05_wave_characterization.scripts.velocity_planar stageXY_template.scripts.check_input stageXY_template.scripts.minimal_example stageXY_template.scripts.script_template

S

stage01_data_entry.scripts.check_input module stage01_data_entry.scripts.enter_data_template module stage01_data_entry.scripts.plot_traces module stage02_processing.scripts.background_subtraction module stage02_processing.scripts.check_input module stage02_processing.scripts.detrending module stage02_processing.scripts.frequency_filter module stage02_processing.scripts.logMUA_estimation module stage02_processing.scripts.normalization module stage02_processing.scripts.phase_transform module stage02_processing.scripts.plot_processed_trace module stage02_processing.scripts.roi_selection module stage02_processing.scripts.spatial_downsampling module stage02_processing.scripts.subsampling module stage02_processing.scripts.zscore module stage03_trigger_detection.scripts.check_input module stage03_trigger_detection.scripts.hilbert_phase module stage03_trigger_detection.scripts.minima module stage03_trigger_detection.scripts.plot_trigger_times module stage03_trigger_detection.scripts.remove_short_states module stage03_trigger_detection.scripts.threshold module stage04_wave_detection.scripts.check_input module stage04_wave_detection.scripts.critical_points module stage04_wave_detection.scripts.merge_wave_definitions module

stage04_wave_detection.scripts.optical_flow module stage04_wave_detection.scripts.plot_clustering module stage04_wave_detection.scripts.trigger_clustering module stage04_wave_detection.scripts.wave_mode_clustering module stage05_channel_wave_characterization.scripts.annotations module stage05_channel_wave_characterization.scripts.check_input module stage05_channel_wave_characterization.scripts.direction_local module stage05_channel_wave_characterization.scripts.flow_direction_local module stage05_channel_wave_characterization.scripts.inter_wave_interval_local module stage05_channel_wave_characterization.scripts.merge_dataframes module stage05_channel_wave_characterization.scripts.velocity_local module stage05_wave_characterization.scripts.annotations module stage05_wave_characterization.scripts.check_input module stage05_wave_characterization.scripts.direction_planar module stage05_wave_characterization.scripts.duration module stage05_wave_characterization.scripts.inter_wave_interval module stage05_wave_characterization.scripts.label_planar module stage05_wave_characterization.scripts.merge_dataframes module stage05_wave_characterization.scripts.number_of_triggers module stage05_wave_characterization.scripts.time_stamp module stage05_wave_characterization.scripts.velocity_planar module stageXY_template.scripts.check_input module stageXY_template.scripts.minimal_example module stageXY_template.scripts.script_template module