| src / thunderfish / __init__.py |
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best_window |
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plot_best_window |
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plot_data_window |
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add_best_window_config |
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analysis_window |
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main |
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check_pulse |
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check_pulse.ratio |
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5 |
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| src / thunderfish / checkpulse.py |
add_check_pulse_config |
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check_pulse_args |
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true_chirp_power_drop |
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true_chirp_power_rise_above |
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chirp_detection |
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chirp_detection_plot |
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chirp_analysis |
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collect_fish |
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288 |
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collect_fish.file_iter |
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collect_fish.find_recording |
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rangestr |
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| src / thunderfish / consistentfishes.py |
find_consistency |
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8 |
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consistent_fishes |
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plot_consistent_fishes |
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(no function) |
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efish_monopoles |
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object_monopoles |
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epotential |
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epotential_meshgrid |
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efield |
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projection |
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fieldline |
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squareroot_transform |
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plot_fieldlines |
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main |
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eod_waveform |
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31 |
11 |
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adjust_eodf |
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1 |
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waveeod_waveform |
|
55 |
55 |
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waveeod_waveform.fourier_wave |
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7 |
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waveeod_waveform.fourier_range |
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unfilter |
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fourier_series |
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analyze_wave |
|
140 |
36 |
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0 |
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pulse_spectrum |
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analyze_pulse_spectrum |
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11 |
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analyze_pulse_phases |
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44 |
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gaussian_sum |
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gaussian_sum_spectrum |
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gaussian_sum_costs |
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decompose_pulse |
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43 |
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analyze_pulse_tail |
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59 |
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analyze_pulse_intervals |
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13 |
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analyze_pulse |
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143 |
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load_species_waveforms |
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43 |
43 |
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wave_similarity |
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48 |
48 |
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pulse_similarity |
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30 |
30 |
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clipped_fraction |
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7 |
7 |
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wave_quality |
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64 |
64 |
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pulse_quality |
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19 |
19 |
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plot_eod_recording |
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23 |
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plot_pulse_eods |
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41 |
41 |
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plot_eod_snippets |
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plot_eod_waveform |
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122 |
82 |
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plot_wave_spectrum |
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24 |
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plot_pulse_spectrum |
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37 |
7 |
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save_eod_waveform |
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load_eod_waveform |
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save_wave_eodfs |
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9 |
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load_wave_eodfs |
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save_wave_fish |
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47 |
47 |
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load_wave_fish |
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29 |
29 |
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save_pulse_fish |
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51 |
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load_pulse_fish |
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32 |
32 |
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save_wave_spectrum |
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load_wave_spectrum |
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save_pulse_spectrum |
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load_pulse_spectrum |
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save_pulse_phases |
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load_pulse_phases |
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load_pulse_gaussians |
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parse_filename |
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save_analysis |
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save_analysis.write_file_zip |
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load_analysis |
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load_recording |
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add_eod_analysis_config |
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eod_waveform_args |
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analyze_wave_args |
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analyze_pulse_args |
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3 |
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add_species_config |
|
4 |
4 |
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| src / thunderfish / eodanalysis.py |
add_eod_quality_config |
|
10 |
10 |
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| src / thunderfish / eodanalysis.py |
wave_quality_args |
|
2 |
2 |
0 |
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pulse_quality_args |
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2 |
2 |
0 |
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0% |
| src / thunderfish / eodanalysis.py |
main |
|
15 |
15 |
0 |
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(no function) |
|
84 |
3 |
0 |
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96% |
| src / thunderfish / eodexplorer.py |
EODExplorer.__init__ |
|
57 |
57 |
0 |
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0% |
| src / thunderfish / eodexplorer.py |
EODExplorer.__init__.get_spectra |
|
4 |
4 |
0 |
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| src / thunderfish / eodexplorer.py |
EODExplorer.fix_scatter_plot |
|
40 |
40 |
0 |
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| src / thunderfish / eodexplorer.py |
EODExplorer.fix_waveform_plot |
|
55 |
55 |
0 |
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0% |
| src / thunderfish / eodexplorer.py |
EODExplorer.list_selection |
|
24 |
24 |
0 |
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0% |
| src / thunderfish / eodexplorer.py |
EODExplorer.analyze_selection |
|
32 |
32 |
0 |
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0% |
| src / thunderfish / eodexplorer.py |
EODExplorer.select_EOD_properties |
|
95 |
95 |
0 |
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0% |
| src / thunderfish / eodexplorer.py |
load_waveform |
|
23 |
23 |
0 |
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0% |
| src / thunderfish / eodexplorer.py |
main |
|
108 |
108 |
0 |
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| src / thunderfish / eodexplorer.py |
(no function) |
|
44 |
44 |
0 |
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| src / thunderfish / fakefish.py |
abbrv_genus |
|
2 |
0 |
0 |
|
100% |
| src / thunderfish / fakefish.py |
wavefish_spectrum |
|
18 |
0 |
0 |
|
100% |
| src / thunderfish / fakefish.py |
wavefish_eods |
|
11 |
0 |
0 |
|
100% |
| src / thunderfish / fakefish.py |
normalize_wavefish |
|
18 |
0 |
0 |
|
100% |
| src / thunderfish / fakefish.py |
export_wavefish |
|
29 |
0 |
0 |
|
100% |
| src / thunderfish / fakefish.py |
chirps |
|
23 |
4 |
0 |
|
83% |
| src / thunderfish / fakefish.py |
rises |
|
14 |
0 |
0 |
|
100% |
| src / thunderfish / fakefish.py |
pulsefish_phases |
|
17 |
0 |
0 |
|
100% |
| src / thunderfish / fakefish.py |
pulsefish_spectrum |
|
8 |
8 |
0 |
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0% |
| src / thunderfish / fakefish.py |
pulsefish_waveform |
|
5 |
0 |
0 |
|
100% |
| src / thunderfish / fakefish.py |
pulsefish_eods |
|
20 |
0 |
0 |
|
100% |
| src / thunderfish / fakefish.py |
normalize_pulsefish |
|
12 |
0 |
0 |
|
100% |
| src / thunderfish / fakefish.py |
export_pulsefish |
|
42 |
0 |
0 |
|
100% |
| src / thunderfish / fakefish.py |
generate_waveform |
|
64 |
1 |
0 |
|
98% |
| src / thunderfish / fakefish.py |
generate_testfiles |
|
83 |
83 |
0 |
|
0% |
| src / thunderfish / fakefish.py |
demo |
|
62 |
0 |
0 |
|
100% |
| src / thunderfish / fakefish.py |
main |
|
16 |
4 |
0 |
|
75% |
| src / thunderfish / fakefish.py |
(no function) |
|
39 |
2 |
0 |
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95% |
| src / thunderfish / fishfinder.py |
SignalPlot.__init__ |
|
101 |
101 |
0 |
|
0% |
| src / thunderfish / fishfinder.py |
SignalPlot.__del__ |
|
1 |
1 |
0 |
|
0% |
| src / thunderfish / fishfinder.py |
SignalPlot.remove_peak_annotation |
|
6 |
6 |
0 |
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0% |
| src / thunderfish / fishfinder.py |
SignalPlot.annotate_peak |
|
11 |
11 |
0 |
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0% |
| src / thunderfish / fishfinder.py |
SignalPlot.annotate_fish |
|
6 |
6 |
0 |
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0% |
| src / thunderfish / fishfinder.py |
SignalPlot.update_plots |
|
124 |
124 |
0 |
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0% |
| src / thunderfish / fishfinder.py |
SignalPlot.keypress |
|
221 |
221 |
0 |
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0% |
| src / thunderfish / fishfinder.py |
SignalPlot.buttonpress |
|
34 |
34 |
0 |
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0% |
| src / thunderfish / fishfinder.py |
SignalPlot.onpick |
|
3 |
3 |
0 |
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0% |
| src / thunderfish / fishfinder.py |
SignalPlot.resize |
|
14 |
14 |
0 |
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0% |
| src / thunderfish / fishfinder.py |
SignalPlot.plot_waveform |
|
26 |
26 |
0 |
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0% |
| src / thunderfish / fishfinder.py |
SignalPlot.play_segment |
|
5 |
5 |
0 |
|
0% |
| src / thunderfish / fishfinder.py |
SignalPlot.save_segment |
|
9 |
9 |
0 |
|
0% |
| src / thunderfish / fishfinder.py |
SignalPlot.play_all |
|
1 |
1 |
0 |
|
0% |
| src / thunderfish / fishfinder.py |
SignalPlot.play_tone |
|
1 |
1 |
0 |
|
0% |
| src / thunderfish / fishfinder.py |
short_user_warning |
|
6 |
6 |
0 |
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0% |
| src / thunderfish / fishfinder.py |
main |
|
28 |
28 |
0 |
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0% |
| src / thunderfish / fishfinder.py |
(no function) |
|
38 |
38 |
0 |
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0% |
| src / thunderfish / fishshapes.py |
fish_shape |
|
7 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
plot_fish |
|
33 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
plot_object |
|
1 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
plot_fishfinder |
|
25 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
plot_pathes |
|
14 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
fish_surface |
|
38 |
1 |
0 |
|
97% |
| src / thunderfish / fishshapes.py |
surface_normals |
|
9 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
extract_path |
|
9 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
bbox_pathes |
|
14 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
translate_pathes |
|
3 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
center_pathes |
|
4 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
rotate_pathes |
|
6 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
flipx_pathes |
|
2 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
flipy_pathes |
|
2 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
mirror_path |
|
4 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
normalize_path |
|
6 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
bend_path |
|
12 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
export_path |
|
7 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
export_fish |
|
10 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
export_fish_demo |
|
17 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
main |
|
37 |
0 |
0 |
|
100% |
| src / thunderfish / fishshapes.py |
(no function) |
|
47 |
1 |
0 |
|
98% |
| src / thunderfish / harmonics.py |
group_candidate |
|
98 |
16 |
0 |
|
84% |
| src / thunderfish / harmonics.py |
update_group |
|
26 |
1 |
0 |
|
96% |
| src / thunderfish / harmonics.py |
build_harmonic_group |
|
46 |
1 |
0 |
|
98% |
| src / thunderfish / harmonics.py |
retrieve_harmonic_group |
|
14 |
7 |
0 |
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50% |
| src / thunderfish / harmonics.py |
expand_group |
|
28 |
4 |
0 |
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86% |
| src / thunderfish / harmonics.py |
extract_fundamentals |
|
83 |
23 |
0 |
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72% |
| src / thunderfish / harmonics.py |
threshold_estimate |
|
8 |
0 |
0 |
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100% |
| src / thunderfish / harmonics.py |
harmonic_groups |
|
35 |
3 |
0 |
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91% |
| src / thunderfish / harmonics.py |
fundamental_freqs |
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14 |
1 |
0 |
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93% |
| src / thunderfish / harmonics.py |
fundamental_freqs_and_power |
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16 |
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0 |
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94% |
| src / thunderfish / harmonics.py |
add_relative_power |
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1 |
0 |
0 |
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100% |
| src / thunderfish / harmonics.py |
add_power_ranks |
|
7 |
0 |
0 |
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100% |
| src / thunderfish / harmonics.py |
similar_indices |
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31 |
8 |
0 |
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74% |
| src / thunderfish / harmonics.py |
unique_mask |
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27 |
4 |
0 |
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85% |
| src / thunderfish / harmonics.py |
unique |
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24 |
7 |
0 |
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71% |
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colors_markers |
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24 |
0 |
0 |
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100% |
| src / thunderfish / harmonics.py |
plot_harmonic_groups |
|
44 |
13 |
0 |
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70% |
| src / thunderfish / harmonics.py |
plot_psd_harmonic_groups |
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13 |
0 |
0 |
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100% |
| src / thunderfish / harmonics.py |
add_psd_peak_detection_config |
|
7 |
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0 |
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100% |
| src / thunderfish / harmonics.py |
psd_peak_detection_args |
|
1 |
0 |
0 |
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100% |
| src / thunderfish / harmonics.py |
add_harmonic_groups_config |
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14 |
0 |
0 |
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100% |
| src / thunderfish / harmonics.py |
harmonic_groups_args |
|
1 |
0 |
0 |
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100% |
| src / thunderfish / harmonics.py |
main |
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58 |
5 |
0 |
|
91% |
| src / thunderfish / harmonics.py |
(no function) |
|
37 |
5 |
0 |
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86% |
| src / thunderfish / hopkinsloader.py |
load_hopkins |
|
41 |
41 |
0 |
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0% |
| src / thunderfish / hopkinsloader.py |
analyse_hopkins |
|
27 |
27 |
0 |
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0% |
| src / thunderfish / hopkinsloader.py |
(no function) |
|
20 |
20 |
0 |
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0% |
| src / thunderfish / pulseplots.py |
warn |
|
1 |
1 |
0 |
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0% |
| src / thunderfish / pulseplots.py |
darker |
|
23 |
23 |
0 |
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0% |
| src / thunderfish / pulseplots.py |
lighter |
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23 |
23 |
0 |
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| src / thunderfish / pulseplots.py |
xscalebar |
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53 |
53 |
0 |
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| src / thunderfish / pulseplots.py |
yscalebar |
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53 |
53 |
0 |
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| src / thunderfish / pulseplots.py |
arrowed_spines |
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5 |
5 |
0 |
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0% |
| src / thunderfish / pulseplots.py |
loghist |
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1 |
1 |
0 |
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0% |
| src / thunderfish / pulseplots.py |
plot_all |
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18 |
18 |
0 |
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| src / thunderfish / pulseplots.py |
plot_clustering |
|
118 |
118 |
0 |
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0% |
| src / thunderfish / pulseplots.py |
plot_bgm |
|
59 |
59 |
0 |
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| src / thunderfish / pulseplots.py |
plot_feature_extraction |
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54 |
54 |
0 |
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0% |
| src / thunderfish / pulseplots.py |
plot_moving_fish |
|
45 |
45 |
0 |
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0% |
| src / thunderfish / pulseplots.py |
(no function) |
|
34 |
34 |
0 |
|
0% |
| src / thunderfish / pulses.py |
warn |
|
1 |
1 |
0 |
|
0% |
| src / thunderfish / pulses.py |
unique_counts |
|
10 |
10 |
0 |
|
0% |
| src / thunderfish / pulses.py |
extract_pulsefish |
|
52 |
52 |
0 |
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0% |
| src / thunderfish / pulses.py |
detect_pulses |
|
56 |
56 |
0 |
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0% |
| src / thunderfish / pulses.py |
assign_side_peaks |
|
23 |
23 |
0 |
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0% |
| src / thunderfish / pulses.py |
cluster |
|
136 |
136 |
0 |
|
0% |
| src / thunderfish / pulses.py |
BGM |
|
36 |
36 |
0 |
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0% |
| src / thunderfish / pulses.py |
merge_gaussians |
|
11 |
11 |
0 |
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0% |
| src / thunderfish / pulses.py |
extract_snippet_features |
|
6 |
6 |
0 |
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0% |
| src / thunderfish / pulses.py |
cluster_on_shape |
|
7 |
7 |
0 |
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0% |
| src / thunderfish / pulses.py |
subtract_slope |
|
8 |
8 |
0 |
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| src / thunderfish / pulses.py |
remove_artefacts |
|
17 |
17 |
0 |
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0% |
| src / thunderfish / pulses.py |
delete_unreliable_fish |
|
14 |
14 |
0 |
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| src / thunderfish / pulses.py |
delete_wavefish_and_sidepeaks |
|
34 |
34 |
0 |
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0% |
| src / thunderfish / pulses.py |
merge_clusters |
|
33 |
33 |
0 |
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0% |
| src / thunderfish / pulses.py |
extract_means |
|
17 |
17 |
0 |
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0% |
| src / thunderfish / pulses.py |
find_clipped_clusters |
|
12 |
12 |
0 |
|
0% |
| src / thunderfish / pulses.py |
delete_moving_fish |
|
78 |
78 |
0 |
|
0% |
| src / thunderfish / pulses.py |
remove_sparse_detections |
|
9 |
9 |
0 |
|
0% |
| src / thunderfish / pulses.py |
(no function) |
|
42 |
42 |
0 |
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0% |
| src / thunderfish / pulsetracker.py |
makeeventlist |
|
38 |
38 |
0 |
|
0% |
| src / thunderfish / pulsetracker.py |
discardnearbyevents |
|
21 |
21 |
0 |
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0% |
| src / thunderfish / pulsetracker.py |
crosscorrelation |
|
1 |
1 |
0 |
|
0% |
| src / thunderfish / pulsetracker.py |
interpol |
|
3 |
3 |
0 |
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0% |
| src / thunderfish / pulsetracker.py |
interpolated_array |
|
1 |
1 |
0 |
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0% |
| src / thunderfish / pulsetracker.py |
cut_snippets |
|
33 |
33 |
0 |
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0% |
| src / thunderfish / pulsetracker.py |
pc |
|
3 |
3 |
0 |
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0% |
| src / thunderfish / pulsetracker.py |
chebyshev |
|
7 |
7 |
0 |
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| src / thunderfish / pulsetracker.py |
dbscan |
|
8 |
8 |
1 |
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| src / thunderfish / pulsetracker.py |
cluster_events |
|
5 |
5 |
0 |
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0% |
| src / thunderfish / pulsetracker.py |
Peaklist.__init__ |
|
9 |
9 |
0 |
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0% |
| src / thunderfish / pulsetracker.py |
connect_blocks |
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9 |
9 |
0 |
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| src / thunderfish / pulsetracker.py |
alignclusterlabels |
|
18 |
18 |
0 |
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| src / thunderfish / pulsetracker.py |
ampwalkclassify3_refactor |
|
127 |
127 |
0 |
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| src / thunderfish / pulsetracker.py |
discard_wave_pulses |
|
21 |
21 |
0 |
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| src / thunderfish / pulsetracker.py |
plot_events_on_data |
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16 |
16 |
0 |
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| src / thunderfish / pulsetracker.py |
discard_short_classes |
|
8 |
8 |
0 |
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| src / thunderfish / pulsetracker.py |
path_leaf |
|
3 |
3 |
0 |
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| src / thunderfish / pulsetracker.py |
save_EOD_events_to_npmmp |
|
7 |
7 |
0 |
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| src / thunderfish / pulsetracker.py |
create_threshold_array |
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5 |
5 |
0 |
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| src / thunderfish / pulsetracker.py |
alignlabels |
|
10 |
10 |
0 |
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analyze_pulse_data |
|
136 |
136 |
0 |
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0% |
| src / thunderfish / pulsetracker.py |
main |
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2 |
2 |
0 |
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0% |
| src / thunderfish / pulsetracker.py |
(no function) |
|
45 |
45 |
0 |
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0% |
| src / thunderfish / thunderbrowse.py |
SignalPlot.__init__ |
|
193 |
193 |
0 |
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0% |
| src / thunderfish / thunderbrowse.py |
SignalPlot.__del__ |
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1 |
1 |
0 |
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| src / thunderfish / thunderbrowse.py |
SignalPlot.plot_pulses |
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23 |
23 |
0 |
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SignalPlot.plot_pulses.plot_pulse_traces |
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13 |
0 |
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SignalPlot.update_plots |
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SignalPlot.on_pick |
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60 |
60 |
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SignalPlot.resize |
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9 |
9 |
0 |
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SignalPlot.keypress |
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144 |
144 |
0 |
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| src / thunderfish / thunderbrowse.py |
SignalPlot.play_segment |
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6 |
6 |
0 |
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| src / thunderfish / thunderbrowse.py |
SignalPlot.play_all |
|
1 |
1 |
0 |
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| src / thunderfish / thunderbrowse.py |
SignalPlot.save_segment |
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11 |
11 |
0 |
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| src / thunderfish / thunderbrowse.py |
SignalPlot.plot_traces |
|
39 |
39 |
0 |
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0% |
| src / thunderfish / thunderbrowse.py |
short_user_warning |
|
6 |
6 |
0 |
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0% |
| src / thunderfish / thunderbrowse.py |
main |
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25 |
25 |
0 |
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0% |
| src / thunderfish / thunderbrowse.py |
(no function) |
|
28 |
28 |
0 |
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0% |
| src / thunderfish / thunderfish.py |
configuration |
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18 |
18 |
0 |
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0% |
| src / thunderfish / thunderfish.py |
save_configuration |
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10 |
10 |
0 |
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0% |
| src / thunderfish / thunderfish.py |
detect_eods |
|
145 |
145 |
0 |
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0% |
| src / thunderfish / thunderfish.py |
remove_eod_files |
|
8 |
8 |
0 |
|
0% |
| src / thunderfish / thunderfish.py |
plot_style |
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4 |
4 |
0 |
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0% |
| src / thunderfish / thunderfish.py |
axes_style |
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4 |
4 |
0 |
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0% |
| src / thunderfish / thunderfish.py |
plot_eods |
|
205 |
205 |
0 |
|
0% |
| src / thunderfish / thunderfish.py |
plot_eods.keypress |
|
9 |
9 |
0 |
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0% |
| src / thunderfish / thunderfish.py |
plot_eods.recording_format_coord |
|
1 |
1 |
0 |
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0% |
| src / thunderfish / thunderfish.py |
plot_eods.recordingzoom_format_coord |
|
1 |
1 |
0 |
|
0% |
| src / thunderfish / thunderfish.py |
plot_eods.psd_format_coord |
|
1 |
1 |
0 |
|
0% |
| src / thunderfish / thunderfish.py |
plot_eods.meaneod_format_coord |
|
1 |
1 |
0 |
|
0% |
| src / thunderfish / thunderfish.py |
plot_eods.ampl_format_coord |
|
1 |
1 |
0 |
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0% |
| src / thunderfish / thunderfish.py |
plot_eods.phase_format_coord |
|
1 |
1 |
0 |
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0% |
| src / thunderfish / thunderfish.py |
plot_eods.pulsepsd_format_coord |
|
1 |
1 |
0 |
|
0% |
| src / thunderfish / thunderfish.py |
plot_eod_subplots |
|
175 |
175 |
0 |
|
0% |
| src / thunderfish / thunderfish.py |
thunderfish_plot |
|
62 |
62 |
0 |
|
0% |
| src / thunderfish / thunderfish.py |
thunderfish |
|
92 |
92 |
0 |
|
0% |
| src / thunderfish / thunderfish.py |
run_thunderfish |
|
17 |
17 |
0 |
|
0% |
| src / thunderfish / thunderfish.py |
main |
|
130 |
130 |
0 |
|
0% |
| src / thunderfish / thunderfish.py |
(no function) |
|
77 |
77 |
0 |
|
0% |
| src / thunderfish / thunderlogger.py |
add_thunderlogger_config |
|
6 |
6 |
0 |
|
0% |
| src / thunderfish / thunderlogger.py |
extract_eods |
|
104 |
104 |
0 |
|
0% |
| src / thunderfish / thunderlogger.py |
save_times |
|
14 |
14 |
0 |
|
0% |
| src / thunderfish / thunderlogger.py |
load_times |
|
9 |
9 |
0 |
|
0% |
| src / thunderfish / thunderlogger.py |
save_power |
|
8 |
8 |
0 |
|
0% |
| src / thunderfish / thunderlogger.py |
load_power |
|
17 |
17 |
0 |
|
0% |
| src / thunderfish / thunderlogger.py |
save_data |
|
29 |
29 |
0 |
|
0% |
| src / thunderfish / thunderlogger.py |
load_data |
|
61 |
61 |
0 |
|
0% |
| src / thunderfish / thunderlogger.py |
plot_signal_power |
|
28 |
28 |
0 |
|
0% |
| src / thunderfish / thunderlogger.py |
merge_fish |
|
32 |
32 |
0 |
|
0% |
| src / thunderfish / thunderlogger.py |
plot_eod_occurances |
|
64 |
64 |
0 |
|
0% |
| src / thunderfish / thunderlogger.py |
main |
|
119 |
119 |
0 |
|
0% |
| src / thunderfish / thunderlogger.py |
(no function) |
|
38 |
38 |
0 |
|
0% |
| src / thunderfish / version.py |
(no function) |
|
7 |
0 |
0 |
|
100% |