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15 March 2023 Open-source image analysis pipeline with 100+ fold speed-up and real-time compression (Conference Presentation)
Jules Scholler, Joel Jonsson, Tomas Jorda-Siquier, Ivana Gantar, Laura Batti, Stephane Pages, Christophe M. Lamy, Ivo F. Sbalzarini
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Proceedings Volume PC12385, Three-Dimensional and Multidimensional Microscopy: Image Acquisition and Processing XXX; PC1238509 (2023) https://doi.org/10.1117/12.2647105
Event: SPIE BiOS, 2023, San Francisco, California, United States
Abstract
We propose an end-to-end image analysis pipeline based on the Adaptive Particle Representation (APR) for analyzing large 3D cleared tissue samples such as whole mouse brains or large human brain sections, achieving 100+ times faster computation. Our pipeline is compatible with real-time use, i.e. analysis can be done during acquisition. In addition to faster processing, using APR yields memory and storage compression ratios ranging from dozens to thousands depending on the labeling sparsity, saving costs on the storage and computing infrastructures.
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Jules Scholler, Joel Jonsson, Tomas Jorda-Siquier, Ivana Gantar, Laura Batti, Stephane Pages, Christophe M. Lamy, and Ivo F. Sbalzarini "Open-source image analysis pipeline with 100+ fold speed-up and real-time compression (Conference Presentation)", Proc. SPIE PC12385, Three-Dimensional and Multidimensional Microscopy: Image Acquisition and Processing XXX, PC1238509 (15 March 2023); https://doi.org/10.1117/12.2647105
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KEYWORDS
Brain
Image analysis
Image compression
Data conversion
Statistical analysis
Error control coding
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