Automated spike sorting algorithm based on Laplacian eigenmaps and k-means clustering.

English: Spike cutouts colored according to th...
English: Spike cutouts colored according to their shape, which presumably identifies that the spikes were generated by two different neurons, a process usually termed spike sorting. The x-axis indicates time in seconds, the y-axis is in μV. (Photo credit: Wikipedia)

Take-home message: spike-sorting is a difficult and time-consuming process involving a combination of operator judgement and automated processing. Here, we propose a robust method of automatic spike sorting based on the combination of Laplacian eigenmaps (LE) feature extraction and the k-means clustering algorithm. The performance of the proposed method is compared with systems based on simple amplitude features and on PCA-derived features. [Download the paper]

Automated spike sorting algorithm based on Laplacian eigenmaps and k-means clustering.

J Neural Eng. 2011 Feb;8(1):016006. doi: 10.1088/1741-2560/8/1/016006. Epub 2011 Jan 19.

Chah E, Hok V, Della-Chiesa A, Miller JJ, O’Mara SM, Reilly RB.

This study presents a new automatic spike sorting method based on feature extraction by Laplacian eigenmaps combined with k-means clustering. The performance of the proposed method was compared against previously reported algorithms such as principal component analysis (PCA) and amplitude-based feature extraction. Two types of classifier (namely k-means and classification expectation-maximization) were incorporated within the spike sorting algorithms, in order to find a suitable classifier for the feature sets. Simulated data sets and in-vivo tetrode multichannel recordings were employed to assess the performance of the spike sorting algorithms. The results show that the proposed algorithm yields significantly improved performance with mean sorting accuracy of 73% and sorting error of 10% compared to PCA which combined with k-means had a sorting accuracy of 58% and sorting error of 10%.A correction was made to this article on 22 February 2011. The spacing of the title was amended on the abstract page. No changes were made to the article PDF and the print version was unaffected.
PMID: 21248378

Author: Shane O'Mara

Neuroscientist