NITRC News Group Forum: a-broadly-applicable-3-d-neuron-tracing-method-based-on-open-curve-snake

NITRC News Group Forum: a-broadly-applicable-3-d-neuron-tracing-method-based-on-open-curve-snake http://www.nitrc.org/forum/forum.php?forum_id=2959 <div class="Abstract" lang="en"><a name="Abs1"></a>Abstract  <div class="normal">This paper presents a broadly applicable algorithm and a comprehensive open-source software implementation for automated tracing of neuronal structures in 3-D microscopy images. The core 3-D neuron tracing algorithm is based on three-dimensional (3-D) open-curve active Contour (Snake). It is initiated from a set of automatically detected seed points. Its evolution is driven by a combination of deforming forces based on the Gradient Vector Flow (GVF), stretching forces based on estimation of the fiber orientations, and a set of control rules. In this tracing model, bifurcation points are detected implicitly as points where multiple snakes collide. A boundariness measure is employed to allow local radius estimation. A suite of pre-processing algorithms enable the system to accommodate diverse neuronal image datasets by reducing them to a common image format. The above algorithms form the basis for a comprehensive, scalable, and efficient software system developed for confocal or brightfield images. It provides multiple automated tracing modes. The user can optionally interact with the tracing system using multiple view visualization, and exercise full control to ensure a high quality reconstruction. We illustrate the utility of this tracing system by presenting results from a synthetic dataset, a brightfield dataset and two confocal datasets from the DIADEM challenge. </div> </div><ul> <li>Content Type Journal Article</li><li>Category Original Article</li><li>Pages 193-217</li><li>DOI 10.1007/s12021-011-9110-5</li><li>Authors<ul> <li>Yu Wang, ECSE Department, Rensselaer Polytechnic Institute, Troy, NY 12180, USA</li><li>Arunachalam Narayanaswamy, ECSE Department, Rensselaer Polytechnic Institute, Troy, NY 12180, USA</li><li>Chia-Ling Tsai, Computer Science Department, Iona College, New Rochelle, NY, USA</li><li>Badrinath Roysam, ECSE Department, Rensselaer Polytechnic Institute, Troy, NY 12180, USA</li> </ul></li> </ul><ul class="parents"> <ul class="details"> <li>Journal <a href="http://www.springerlink.com/content/120559/">Neuroinformatics</a></li><li>Online ISSN 1559-0089</li><li>Print ISSN 1539-2791</li> </ul><ul class="details"> <li>Journal Volume Volume 9</li> </ul><ul class="details"> <li>Journal Issue <a href="http://www.springerlink.com/content/q1w234205257/">Volume 9, Numbers 2-3</a></li> </ul> </ul> en-us Copyright 2000-2026 NITRC OSI Sun, 19 Apr 2026 19:15:15 GMT http://blogs.law.harvard.edu/tech/rss NITRC RSS generator