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Tracing of Neurites

Investigators: Erik Meijering, Mathews Jacob

Main Contributions

We have developed an algorithm to facilitate the tracing and quantitation of neurites in two-dimensional (2D) fluorescence microscopy images. The tracing is done interactively based on the specification of end points; the optimal path is determined on the fly from the optimization of a cost function using Dijkstra's shortest-path algorithm. The procedure also takes advantage of an improved ridge detector implemented by means of a steerable filterbank.

The software is available as a Java pluging, NeuronJ, for ImageJ.

Collaborations: Prof. Michael Unser; Dr. Harard Hirling, Juan-Carlos Sarria, Pascal Steiner (Institute of Neurosciences, EPFL)

Period: 2002-2004

Major Publications

[1] 

E. Meijering, M. Jacob, J.-C.F. Sarria, P. Steiner, H. Hirling, M. Unser, "Design and Validation of a Tool for Neurite Tracing and Analysis in Fluorescence Microscopy Images," Cytometry Part A, vol. 58A, no. 2, pp. 167-176, April 2004.

[2] 

M. Jacob, M. Unser, "Design of Steerable Filters for Feature Detection Using Canny-Like Criteria," IEEE Transactions on Pattern Analysis and Machine Intelligence, vol. 26, no. 8, pp. 1007-1019, August 2004.

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