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Mapping complex spatio-temporal models to image space: The virtual microscope

Denis K. Samuylov, Lukas A. Widmer, Gábor Székely and Grégory Paul
12th International Symposium on Biomedical Imaging (ISBI)
New York, NY 2015


Simulating synthetic image data is crucial for the design and validation of bio-imaging pipelines. Most of the existing frameworks assume objects in pixel space, whereas most of the spatio-temporal models of biological processes are formulated in object space. We show that the key to a physically-principled synthetic image data simulation engine is to model carefully the mapping between objects and pixels. We present a sound mathematical and computational framework for our simulation engine: the virtual microscope. A careful measure-theoretic formulation of the object–pixel mapping allows us to handle the simulation of image data arising from complex spatio-temporal dynamics. Computationally, we show that we can generally approximate the object–pixel mapping by a linear combination of shifted/scaled point spread functions that can be evaluated efficiently. We demonstrate the ability of our framework to handle real-world, complex spatio-temporal dynamics.

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  author = {Denis K. Samuylov and Lukas A. Widmer and Gábor Székely and Grégory Paul},
  title = {Mapping complex spatio-temporal models to image space: The virtual microscope},
  booktitle = {12th International Symposium on Biomedical Imaging (ISBI)},
  year = {2015},
  pages = {707 - 711},
  publisher = {IEEE},
  keywords = {}