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Fast and accurate spike sorting of high-channel count probes with KiloSort

Pachitariu, M; Steinmetz, N; Kadir, S; Carandini, M; Harris, K; (2016) Fast and accurate spike sorting of high-channel count probes with KiloSort. In: Lee, DD and Sugiyama, M and Luxburg, UV and Guyon, I and Garnett, R, (eds.) Advances in Neural Information Processing Systems 29 (NIPS 2016). NIPS Proceedings: Barcelona, Spain. Green open access

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Abstract

New silicon technology is enabling large-scale electrophysiological recordings in vivo from hundreds to thousands of channels. Interpreting these recordings requires scalable and accurate automated methods for spike sorting, which should minimize the time required for manual curation of the results. Here we introduce KiloSort, a new integrated spike sorting framework that uses template matching both during spike detection and during spike clustering. KiloSort models the electrical voltage as a sum of template waveforms triggered on the spike times, which allows overlapping spikes to be identified and resolved. Unlike previous algorithms that compress the data with PCA, KiloSort operates on the raw data which allows it to construct a more accurate model of the waveforms. Processing times are faster than in previous algorithms thanks to batch-based optimization on GPUs. We compare KiloSort to an established algorithm and show favorable performance, at much reduced processing times. A novel post-clustering merging step based on the continuity of the templates further reduced substantially the number of manual operations required on this data, for the neurons with near-zero error rates, paving the way for fully automated spike sorting of multichannel electrode recordings.

Type: Proceedings paper
Title: Fast and accurate spike sorting of high-channel count probes with KiloSort
Event: Neural Information Processing Systems 2016
Open access status: An open access version is available from UCL Discovery
Publisher version: https://papers.nips.cc/paper/6326-fast-and-accurat...
Language: English
Additional information: This version is the version of record. For information on re-use, please refer to the publisher’s terms and conditions.
UCL classification: UCL
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Brain Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Brain Sciences > Institute of Ophthalmology
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Brain Sciences > UCL Queen Square Institute of Neurology
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Brain Sciences > UCL Queen Square Institute of Neurology > Department of Neuromuscular Diseases
URI: https://discovery.ucl.ac.uk/id/eprint/1557035
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