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Sep 2012
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May 2015
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Short Description

This is an icy package that encapsulates tools to design and implement parametric active contours. The package provides fast 2D and 3D filters for image preprocessing, and a framework to create and evolve snakes defined by a set of control points.

Documentation

Active contours constitute a computationally attractive framework for image segmentation.

References

Applications

V. Uhlmann, P. Ramdya, R. Delgado-Gonzalo, R. Benton, M. Unser, "FlyLimbTracker: An Active Contour Based Approach for Leg Segment Tracking in Unmarked, Freely Behaving Drosophila," PLoS ONE, vol. 12, no. 4, pp. 1-21, April 28, 2017.

D. Schmitter, R. Delgado-Gonzalo, G. Krueger, M. Unser, "Atlas-Free Brain Segmentation in 3D Proton-Density-Like MRI Images," Proc. IEEE ISBI'14, Beijing, China, April 29-May 2, 2014, pp. 629-632.

P.O. Michel, R. Delgado-Gonzalo, M. Hubert, L. Baldi, D.L. Hacker, M. Unser, F.M. Wurm, "Assessment of Chromosomal Length Variation in CHO Cells," Proc. Euro. Soc. Animal Cell Tech.'13, Lille, France, June 23-26, 2013, pp. 206.

P.O. Michel, R. Delgado-Gonzalo, M. Hubert, L. Baldi, D.L. Hacker, M. Unser, F.M. Wurm, "Assessment of Chromosomal Size Variation in CHO Cells," Proc. MipTec BioValley Life Sci. Week'12, Basel, Switzerland, September 24-27, 2012, paper no. P181, pp. 117.

Framework

V. Uhlmann, R. Delgado-Gonzalo, M. Unser, "Snakes with Tangent-Based Control and Energies for Bioimage Analysis," Proc. IEEE ISBI'14, Beijing, China, April 29-May 2, 2014, pp. 806-809.

R. Delgado-Gonzalo, V. Uhlmann, D. Schmitter, M. Unser, "Snakes on a Plane: A Perfect Snap for Bioimage Analysis," IEEE Signal Processing Magazine, vol. 32, no. 1, pp. 41-48, January 2015.

R. Delgado-Gonzalo, N. Chenouard, M. Unser, "Spline-Based Deforming Ellipsoids for Interactive 3D Bioimage Segmentation," IEEE Transactions on Image Processing, vol. 22, no. 10, pp. 3926-3940, October 2013.

R. Delgado-Gonzalo, M. Unser, "Spline-Based Framework for Interactive Segmentation in Biomedical Imaging," IRBM—Ingénierie et Recherche Biomédicale / BioMedical Engineering and Research, , vol. 34, no. 3, pp. 235-243, June 2013.

R. Delgado Gonzalo, "Segmentation and Tracking in High-Throughput Bioimaging," Swiss Federal Institute of Technology Lausanne, EPFL Thesis no. 5657 (2013), 186 p., March 15, 2013.

R. Delgado-Gonzalo, N. Chenouard, M. Unser, "Fast Parametric Snakes for 3D Microscopy," Proc. IEEE ISBI'12, Barcelona, Spain, May 2-5, 2012.

R. Delgado-Gonzalo, P. Thévenaz, C.S. Seelamantula, M. Unser, "Snakes with an Ellipse-Reproducing Property," IEEE Transactions on Image Processing, vol. 21, no. 3, pp. 1258-1271, March 2012.

R. Delgado-Gonzalo, P. Thévenaz, M. Unser, "Exponential Splines and Minimal-Support Bases for Curve Representation," Computer Aided Geometric Design, vol. 29, no. 2, pp. 109-128, February 2012.

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Changelog

  • Version 2.5.0.2 • Released on: 2015-05-30 16:11:55
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    upload again...

  • Version 2.5.0.1 • Released on: 2015-05-28 18:40:58
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    reupload

  • Version 2.5.0.0 • Released on: 2015-05-24 18:54:13
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    - Included new methods to deal with subdivision

  • Version 2.4.0.0 • Released on: 2015-02-11 23:40:38
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    Minor improvements

  • Version 2.3.1.0 • Released on: 2014-12-08 23:24:47
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    Minor changes

  • Version 2.3.0.0 • Released on: 2014-11-30 16:00:49
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    Added new features to the toolbox

  • Version 2.2.0.0 • Released on: 2014-08-07 20:13:11
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    - Bug fixes
    - Updated to latest vtk library

  • Version 2.1.0.0 • Released on: 2014-05-03 01:35:15
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    Adapted to VTK6

  • Version 2.0.1.0 • Released on: 2014-04-01 23:19:24
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    Reupload

  • Version 2.0.0.0 • Released on: 2013-11-13 17:28:56
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    - Implementes support to prior shapes

  • Version 1.8.0.0 • Released on: 2013-11-11 14:33:02
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    Implemented structures for saving/loading snakes

  • Version 1.7.0.6 • Released on: 2013-10-30 17:43:32
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    - Modifications to comply with icy 1.4.0.0

  • Version 1.5.1.5 • Released on: 2013-10-29 11:18:31
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    - Fixed bug on the prior shapes
    - Updated javadoc

  • Version 1.5.1.4 • Released on: 2013-10-22 15:43:00
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    Refactored dependencies

  • Version 1.5.1.3 • Released on: 2013-09-12 14:00:46
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    - Corrected installation

  • Version 1.5.1.2 • Released on: 2013-09-12 13:13:22
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    Minor improvements

  • Version 1.5.1.1 • Released on: 2013-09-12 13:12:30
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    - Corrected a bug that prevented good binarization

  • Version 1.5.1.0 • Released on: 2013-05-21 10:49:24
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    Minor improvements

  • Version 1.5.0.0 • Released on: 2013-05-06 19:03:52
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    - Added methods to manipulate polygons.

  • Version 1.4.0.0 • Released on: 2013-04-26 10:29:23
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    Description:

    Code reorganization. Some classes from the Active Cell plug-ins have been moved here.

  • Version 1.3.1.0 • Released on: 2013-04-16 19:57:19
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    Added auxiliary geometric procedures

  • Version 1.3.0.0 • Released on: 2013-02-14 16:28:14
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    Possibility to change the stroke thickness of a Snake2DScale.

  • Version 1.2.0.1 • Released on: 2013-01-16 16:55:50
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    Updated methods to support Icy 1.3.0.0

  • Version 1.2.0.0 • Released on: 2012-11-05 16:21:27
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  • Version 1.1.0.1 • Released on: 2012-10-23 15:42:17
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    Description:

    Updated javadoc

  • Version 1.1.0.0 • Released on: 2012-10-16 17:15:31
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    Description:

    Various gui improvements

  • Version 1.0.0.0 • Released on: 2012-09-16 16:30:26
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    Initial submit

  • Version 0.0.1.1b • Released on: 2012-09-12 15:47:24
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  • Version 0.0.1.0b • Released on: 2012-09-12 15:09:14
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