Hi everyone, I am trying to reproduce the electrophysiological clustering you did in Gouwens, et al 2019, on our database of electrophysiological recordings, starting from the raw stimulus-membrane voltage traces, and I have some questions about the features and how they are extracted and organized…

[image] Jballbe: About the Action potential waveform (and its derivative): For a given cell, does the waveform come from the first sweep with at least 5 AP, or is it averaged over all sweeps with AP? In Gouwens et al. 2019, we use three action potential waveforms - one from the short square s…

Hello, Sorry for my delayed answer. Thank you for these clarifications. Regarding Action potential Waveform (and it its derivative), my question came from the fact that in the feature extraction code , I saw: def first_ap_vectors(sweeps_list, spike_info_list, target_sampling_rate=50000, wi…

[image] Jballbe: where the output “avg_ap”, is the result of an average made by avg_ap = np.vstack(ap_list).mean(axis=0) . , where ap_list is a concatenation of multiple action_potential_waveform. I wondered why this line was present, can you enlighten me please? We do average the AP waveform…

Hi again, Regarding the first_ap_vector extraction, according to the code, def first_ap_vectors(sweeps_list, spike_info_list, target_sampling_rate=50000, window_length=0.003, skip_clipped=False): """Average waveforms of first APs from sweeps Parameters ---------- …

If I’m remembering correctly, the zero-valued sections for absent spikes is somewhat of a historical artifact; some piece of the early processing pipeline wasn’t handling NaN values properly (or something along those lines). But you are correct that it’s a sign of missing data - the drcme package , f…

How are the different electrophysiological features (used in the clustering analysis) extracted and arranged for a given cell?

Technical

Jballbe December 12, 2022, 8:52am 5

Thank you very much for these clarifications!

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How are the different electrophysiological features (used in the clustering analysis) extracted and arranged for a given cell?

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