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CellSort

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CellSort

by Eran Mukamel

 

25 Sep 2009 (Updated 10 Apr 2013)

Toolbox for automated sorting of cellular calcium signals from optical imaging data.

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Description

This toolbox includes routines for using principal component analysis (PCA) and independent component analysis (ICA) to extract cellular signals from imaging data sets. A full description and validation of the method is provided in the paper, "Automated Analysis of Cellular Signals from Large-Scale Calcium Imaging Data," Neuron, 63:747 (2009): http://tinyurl.com/cellsort

UPDATE April 2013: Fixed a bug in function "tiff_frames" affecting performance in recent versions of MATLAB.
MATLAB release MATLAB 7.7 (R2008b)
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image processing, independent component analysis(2), neuroscience, signal processing
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Comments and Ratings (2)
04 Feb 2010 Matthias

The associated publication in Neuron 63, 747–760 makes this look promising. However, getting this to run based on the instructions provided in the supplementary publication is very trying for those with less than a mastery of Matlab.

18 Jan 2010 Rob Campbell

These functions are well presented and a lot of care has gone into the code. Well worth a look. However, I have had trouble getting this to work reliably with my data since it has tendency to identify noise as the signal.

Updates
24 Nov 2009

Fixed a minor typo in documentation for CellsortICA - EAM 11/24/09
10 Apr 2013

Fixed a bug affecting performance in recent versions of MATLAB.

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