Unsupervised Spike Sorting for Large-Scale, High-Density Multielectrode Arrays

Cell Reports
Gerrit HilgenMatthias H Hennig


We present a method for automated spike sorting for recordings with high-density, large-scale multielectrode arrays. Exploiting the dense sampling of single neurons by multiple electrodes, an efficient, low-dimensional representation of detected spikes consisting of estimated spatial spike locations and dominant spike shape features is exploited for fast and reliable clustering into single units. Millions of events can be sorted in minutes, and the method is parallelized and scales better than quadratically with the number of detected spikes. Performance is demonstrated using recordings with a 4,096-channel array and validated using anatomical imaging, optogenetic stimulation, and model-based quality control. A comparison with semi-automated, shape-based spike sorting exposes significant limitations of conventional methods. Our approach demonstrates that it is feasible to reliably isolate the activity of up to thousands of neurons and that dense, multi-channel probes substantially aid reliable spike sorting.


Jul 30, 2011·PloS One·Jason S PrenticePhilip C Nelson
Jan 7, 2016·Frontiers in Neuroinformatics·Jens-Oliver MuthmannMatthias H Hennig
Mar 15, 2016·Nature Neuroscience·Cyrille RossantKenneth D Harris


Mar 7, 2017·Journal of Physiology, Paris·Baptiste LefebvreOlivier Marre
Nov 15, 2017·Scientific Reports·Filippo PisanoAlexander Sher
May 2, 2018·Annual Review of Neuroscience·Siegfried Weisenburger, Alipasha Vaziri
Apr 11, 2018·International Journal of Neural Systems·Alireza GhahariTudor C Badea
Aug 15, 2017·Nature Methods·Mark Shein-IdelsonGilles Laurent
Jul 11, 2020·Neuroinformatics·Alessio P Buccino, Gaute Tomas Einevoll
Dec 25, 2018·Frontiers in Cellular Neuroscience·Jonathan JoutyMatthias H Hennig
Feb 20, 2019·International Journal of Neural Systems·Marie Bernert, Blaise Yvert
Mar 8, 2019·Scientific Reports·Bryan C SouzaAdriano B L Tort
Nov 11, 2020·ELife·Alessio P BuccinoMatthias H Hennig

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