EPFL
 Biomedical Imaging GroupSTI
EPFL
  Publications
English only   BIG > Publications > Computational Bioimaging


 CONTENTS
 Home Page
 News & Events
 People
 Publications
 Tutorials and Reviews
 Research
 Demos
 Download Algorithms

 DOWNLOAD
 PDF not available
 PS not available
 All BibTeX References

Computational Bioimaging—Selected Topics

D. Sage, F. Soulez, Z. Püspöki, A. Badoual

Journée MICA 2019: Analyse d'images et bases de données (MICA'19), Valbonne, French Republic, January 22, 2019.



Recent advances in microscope technology combined with powerful computers now provide outstanding images (3D, time-lapse, multichannel, fluorescence), allowing one to address fundamental questions in developmental biology, molecular biology and neuroscience. The analysis of this unprecedented flow of imaging data requires the development of specific software tools to numerically reconstruct images and to automatically perform segmentation, quantification and tracking of structures of interest. This has led to the emergence of a new field of research, #bioimage informatics# which aims to develop computational procedures to process, analyze, and visualize light microscopy images. Here, we report our experience in the development of open-source software tools. These tools are written as Java plugins for the popular open-source software suites: ImageJ, Fiji or Icy. We address the following topics with are common problems in computational bioimaging: the 3D microscopy deconvolution, the directional image analysis for detecting filament-like structure, the deformable model (snake) for segmentation, and the tracking of bright spots in noisy images.


@INPROCEEDINGS(http://bigwww.epfl.ch/publications/sage1901.html,
AUTHOR="Sage, D. and Soulez, F. and P{\"{u}}sp{\"{o}}ki, Z. and Badoual,
        A.",
TITLE="Computational Bioimaging---{S}elected Topics",
BOOKTITLE="Journ{\'{e}}e {MICA} 2019: {A}nalyse d'images et bases de
        donn{\'{e}}es, ({MICA'19})",
YEAR="2019",
editor="",
volume="",
series="",
pages="",
address="Valbonne, French Republic",
month="January 22,",
organization="",
publisher="",
note="")

© 2019 UCA. Personal use of this material is permitted. However, permission to reprint/republish this material for advertising or promotional purposes or for creating new collective works for resale or redistribution to servers or lists, or to reuse any copyrighted component of this work in other works must be obtained from UCA.
This material is presented to ensure timely dissemination of scholarly and technical work. Copyright and all rights therein are retained by authors or by other copyright holders. All persons copying this information are expected to adhere to the terms and constraints invoked by each author's copyright. In most cases, these works may not be reposted without the explicit permission of the copyright holder.