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


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

 DOWNLOAD
 PDF not available
 PS not available
 All BibTeX References

Signal-Processing Algorithms for Bioimaging

D. Sage

Tutorial, International Conference on Signal Processing and Communications (SPCOM'10), Bangalore, India, July 18-21, 2010.



In the last decade, images have become indispensable to understand the structure of the cell organisms and revealing their dynamic interactions. Imaging often plays a key role in discoveries in biology. Structures or particles of interest are tagged with fluorescent probes and imaged with a new generation of 3D high-resolution microscopes which produce a large amount of data for quantitative analysis. Automatic processing of these microscopic images remains a challenging task for the image-processing community, one has to handle multidimensional data often corrupted by a defocussing effect, non-uniform lightning, or important noisy and to deal with living particles that rapidly move, grow, interact, or divide. In this tutorial, we describe several algorithms the restoration and analysis of microscopic images of biological organisms. These algorithms are implemented as Java plugins for ImageJ which is the most popular public-domain image-processing software package in the field of bioimaging. We cover the image preparation (correction for drift by registration, correction for photobleaching, correction for non-uniform illumination), the image restoration (extended-of-field procedure, denoising, deconvolution by PSF modelling) and image analysis (feature identification such as spots or filaments, segmentation by parametric active contour, directional analysis, and tracking). These algorithms have been developed by the Biomedical Imaging Group of the EPFL. While they are based on solid signal-processing fundaments, we have made them freely available and accessible to end-users. The presentation includes concepts of algorithms, applications to life cell imaging and live demonstrations.


@INPROCEEDINGS(http://bigwww.epfl.ch/publications/sage1002.html,
AUTHOR="Sage, D.",
TITLE="Signal-Processing Algorithms for Bioimaging",
BOOKTITLE="International Conference on Signal Processing and
        Communications ({SPCOM'10})",
YEAR="2010",
editor="",
volume="",
series="",
pages="",
address="Bangalore, India",
month=" July 18-21,",
organization="",
publisher="",
note="{Tutorial}")

© 2010 IEEE. 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 IEEE.
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.