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Pedro Real Jean-Luc Mari

VOXELO : a project for computing and visualizing geometric-topological features for nD digital images. Pedro Real Jean-Luc Mari. CATIMAG ’08, Seville. University of Marseille 2 LSIS Laboratory “Image & Models” Team France. University of Seville Dept. Matematica Aplicada I Spain.

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Pedro Real Jean-Luc Mari

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  1. VOXELO:a project for computing and visualizinggeometric-topological features for nD digital images Pedro Real Jean-Luc Mari CATIMAG ’08, Seville University of Marseille 2LSIS Laboratory“Image & Models” TeamFrance University of SevilleDept. Matematica Aplicada ISpain

  2. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Overview • What is Voxelo? • Similar softwares • Improvements and expectations(“TO DO” list) • Who’s involved? How to contribute?

  3. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Overview • What is Voxelo? • Similar softwares • Improvements and expectations(“TO DO” list) • Who’s involved? How to contribute?

  4. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville What is Voxelo? • Initially, a pedagogical tool • To handle and analyze discrete worlds (virtual LEGO) in primary schools • Supported by Spanish Ministry of Science and Technology and Consejería de Innovación of Junta de Andalucia

  5. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville What is Voxelo? • Example of discrete virtual world

  6. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville What is Voxelo? • Example of discrete virtual world

  7. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville What is Voxelo? • Example of discrete virtual world

  8. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville What is Voxelo? • Initially, a pedagogical tool • To handle and analyze discrete worlds (virtual LEGO) in primary schools • Supported by Spanish Ministry of Science and Technology and Consejería de Innovación of Junta de Andalucia

  9. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville What is Voxelo? • Initially, a pedagogical tool • To handle and analyze discrete worlds (virtual LEGO) in primary schools • Supported by Spanish Ministry of Science and Technology and Consejería de Innovación of Junta de Andalucia • A software to run and test AT algorithms • Implementation of algebraic-topological methods (originally in 14-adjacency)

  10. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville What is Voxelo? • Initially, a pedagogical tool • To handle and analyze discrete worlds (virtual LEGO) in primary schools • Supported by Spanish Ministry of Science and Technology and Consejería de Innovación of Junta de Andalucia • A software to run and test AT algorithms • Implementation of algebraic-topological methods (originally in 14-adjacency) First of all: conversion from voxels to simplicial complex

  11. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville What is Voxelo? • Initially, a pedagogical tool • To handle and analyze discrete worlds (virtual LEGO) in primary schools • Supported by Spanish Ministry of Science and Technology and Consejería de Innovación of Junta de Andalucia • A software to run and test AT algorithms • Implementation of algebraic-topological methods (originally in 14-adjacency) First of all: conversion from voxels to simplicial complex

  12. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville What is Voxelo? • Initially, a pedagogical tool • To handle and analyze discrete worlds (virtual LEGO) in primary schools • Supported by Spanish Ministry of Science and Technology and Consejería de Innovación of Junta de Andalucia • A software to run and test AT algorithms • Implementation of algebraic-topological methods (originally in 14-adjacency)

  13. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Overview • What is Voxelo? • Similar softwares • Improvements and expectations(“TO DO” list) • Who’s involved? How to contribute?

  14. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Overview • What is Voxelo? • Similar softwares • Improvements and expectations(“TO DO” list) • Who’s involved? How to contribute?

  15. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Similar softwares • Moka • Univ. Poitiers, France • 3D modeler based ontopology http://www.sic.sp2mi.univ-poitiers.fr/moka

  16. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Similar softwares • CHomP • Computational Homology Project • Software + library http://chomp.rutgers.edu

  17. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Similar softwares • Voxel3D • Voxel based 3D modeling software • Designed for “3D beginners” • Easy to use • No topologicalfeatures http://www.everygraph.com (Shareware)

  18. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Similar softwares • QVox • Volumetric data visualizer and editor • Edition of voxels or surfels • Homotopic thinning algorithms using (6,18), (6,26), (18,6) and (26,6) pairs • Re-sampling, binarization, inversion, mirrors, crop, merge volumes, fill cavities… • OBJ export • Created by Sébastien Fourey (GREYC, Caen, France) • http://qvox.sourceforge.net

  19. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Similar softwares • QVox • Snapshots

  20. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Similar softwares • QVox • Snapshots

  21. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Similar softwares • VolumeGraphics Studio • “Solutions about voxels” • http://www.volumegraphics.com • Visualization software • Raytracer rendering • Slices exploration • DICOM viewer • Geometry analysis • Commercial software

  22. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Similar softwares • Other softwares… • Coma • Univ. Vienna, Austria

  23. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Overview • What is Voxelo? • Similar softwares • Improvements and expectations(“TO DO” list) • Who’s involved? How to contribute?

  24. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Overview • What is Voxelo? • Similar softwares • Improvements and expectations(“TO DO” list) • Who’s involved? How to contribute?

  25. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Improvements • The need of a framework where everybody can contribute • All the code is about to be moved on a SVN repository • Subversion (SVN) is an open source version control system (previously CVS) • Commonly used in software development in order to manage source code • Adapted to a team of developers

  26. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Improvements • Multiplatform software • Currently only a Windows software… • Porting the Windows API to Qt • ( Master students work mostly under Linux ) • To keep: • C++ language • OpenGL

  27. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Improvements • Modularity • Each Master student involved in the project has to be able to add features easily CSG voxel tools VOXELO kernel Morphomath Topological analysis toolkit Thinning module

  28. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Improvements • Integration of 26-adjacency • Work in progress

  29. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Improvements • Integration of 26-adjacency • Work in progress • Implementation of CSG operations on digital volumes • Integration of morphological operations

  30. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Improvements • Implementation of a thinning module • Homotopic thinning using simple points • Directly in the homology computation

  31. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Improvements • Handling of nD digital images • Topology analysis over 4D, etc… • Understanding of topological changes over time

  32. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Improvements • Handling of nD digital images • nD morphological operators (Segmentation of heart data in 4D)

  33. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Improvements • Enhancement to get “good” (geometrically speaking) representative cycles for the homology and cohomology generators • To deal with other representation formalisms for digital volumes (octrees, functional representations…)

  34. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Overview • What is Voxelo? • Similar softwares • Improvements and expectations(“TO DO” list) • Who’s involved? How to contribute?

  35. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Overview • What is Voxelo? • Similar softwares • Improvements and expectations(“TO DO” list) • Who’s involved? How to contribute?

  36. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Who’s involved • Pedro Real (Univ. Seville) • Rocio Gonzalez-Diaz (Univ. Seville) • Javier Sanchez-Pelaez (Univ. Seville) • Former developer • Jean-Luc Mari (Univ. Marseille) • Helena Molina-Abril (Univ. Seville) • Nicolas Jesson (Univ. Marseille, Master student) • Features related to simplicial complexes in 26-adjacency • Simplicialization of octrees • José-Manuel Mercado-Martinez (Univ. Seville + Erasmus student currently in Marseille) • Linux port

  37. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville How to contribute • Declaration of intent • The will to design of a tool for discrete geometry and topological analysis • A platform to run and test algorithms • A way for students to quickly have a feedback on their projects • Without reinventing the wheel…

  38. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville How to contribute • Send me an email mari@univmed.fr • Create an account (Voxelo SVN repository) • Integrate sample code to Voxelo • Implantation of specific algorithm within Voxelo platform • Take time to consider how to integrate specific features • Everybody is welcome :)

  39. P. Real and J.-L. Mari - VOXELO: a project for computing geometric-topological features - CATIMAG ’08, Seville Thank you for your attention

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