IT’IS and ZMT release open source version of the medical image segmentation and modeling toolkit iSEG
The Medical Image Segmentation Tool Set iSEG, originally developed by IT'IS as an in-house solution for the creation of computational anatomical phantoms such as our widely used Virtual Population, is now open source. This important step will facilitate the further improvement, extension, and eventual re-purposing of the iSEG platform for communities beyond its original scope.
The iSEG medical-image segmentation and modeling toolkit is now open source. Watch the introductory tutorial here.
Compared to alternative software, iSEG is able to handle enormous 3D image datasets and manage large numbers of different tissues or complex tissue hierarchies, making it the ideal toolbox for the efficient, fast, and flexible generation of anatomical phantoms from various types of imaging data. Ever since its development, iSEG has been licensed to Z43 partner ZMT for integration into ZMT’s Sim4Life simulation platform as an image-modeling module that allows users to create patient-specific anatomical geometries for dosimetry, hyperthermia, neuro-stimulation, and other life science applications.
The decision to make iSEG open source was made in recognition of the multitude of diverse questions that arise in medical-image segmentation, with powerful problem-specific algorithms and workflows. iSEG is released under the very permissive MIT license on GitHub, which enables users to create their own extensions. To support this feature, we implemented an easy-to-use plugin mechanism to allow the addition of new algorithms with simple user interfaces without having to modify the iSEG core.
We hope this approach will encourage a growing community of researchers and developers to use and extend iSEG for their individual projects. Instructions for building from the source code and tutorials for first-time users are available on our GitHub page.
IT'IS and ZMT remain committed to maintaining and extending iSEG in the future.
Kathrin Burckhardt, Dominik Szczerba, Jedediah Brown, Krishnamurthy Muralidhar, and Gabor Szekely, in Lecture Notes in Computer Science: Euro-Par 2009 - Parallel Processing (refereed proceedings of the 15th International Euro-Par Conference, Delft, The Netherlands, August 25-28, 2009),Volume 5704/200, pp. 747–759, August 22, 2009
Marc Simon Wegmueller, Sonja Huclova, Juerg Froehlich, Michael Oberle, Norbert Felber, Niels Kuster, Wolfgang Fichtner, in IEEE Transactions on Instrumentation and Measurement, Volume 58, Issue 8, pp. 2618–2625, August 2009, online July 7
IT'IS PhD students Manuel Murbach, Sven Kühn, and Marie-Christine Gosselin wins a total of five student awards at the 2009 Joint Meeting of The Bioelectromagnetics Society and the European BioElectromagnetics Associations (BioEM2009) in Davos, Switzerland
Sven Hirsch, Dominik Szczerba, Bryn Lloyd, Michael Bajka, Niels Kuster, and Gábor Székely, in Lecture Notes in Computer Science: Computational Science – ICCS 2009 (Proceedings, Part I, of the 9th International Conference of Computational Science, Baton Rouge, LA, USA, May 25-27, 2009), Volume 5544/2009, pp. 715–724, May 20, 2009
Christina Ziemann, Heidrun Brockmeyer, Siddharth B. Reddy, Vijayalaxmi, Thomas J. Prihoda, Niels Kuster, Thomas Tillmann and Clemens Dasenbrock, in International Journal of Radiation Biology, Volume 85, Issue 5, pp. 454–464, May 2009
Mark G. Douglas, Michael Y. Kanda, Wilson G. Luengas, Maurice Ballen, Tadeusz M. Babij, and Chung-Kwang Chou, IEEE Transactions on Electromagnetic Compatibility, Volume 51, Issue 2, pp. 570–583, May 2009
Alexandre Barbault, Frederico P. Costa, Brad Bottger, Reginald F. Munden, Fin Bomholt, Niels Kuster, and Boris Pasche, in Journal of Experimental & Clinical Cancer Research, Volume 28, Issue 1, p51, April 2009
January 2009, Professor Niels Kuster, Director of the IT'IS Foundation participated in a discussion on current new technologies with Ulrich Wydler, Head of Access + Data Systems EMEA at the KABA group.
Myles Capstick, Donald McRobbie, Jeff Hand, Andreas Christ, Sven Kühn, Kjell Hansson Mild, Eugenia Cabot, Yan Li, Amir Melzer, Annie Papadak, Klaas Prüssmann, Rebecca Quest, Marc Rea, Salome Ryf, Michael Oberle, and Niels Kuster, EU COMMISSION Study on MRI (Project VT/2007/017), IT'IS Foundation & Imperial College, London
Robert McGregor, Dominik Szczerba, Martin von Siebenthal, Krishnamurthy Muralidhar, and Gábor Székely, Lecture Notes in Computer Science: Medical Image Computing and Computer-Assisted Intervention 5242/2008, pp. 782–789, October 2008
Bryn A. Lloyd, Dominik Szczerba, Markus Rudin and Gábor Székely, Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences, Volume 366, Issue 1879, pp. 3301–3318, September 2008
Roberta Benfante, Ruth Adele Antonini, Niels Kuster, Juergen Schuderer, Christian Maercker, Franz Adlkofer, Francesco Clementi and Diego Fornasari, in Toxicology in Vitro, Volume 22, Issue 6, pp. 1489–1495, September 2008