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Wiki source code of 1. Image preprocessing

Last modified by rbakker on 2023/07/17 12:35

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3.1	1	== Image preprocessing ==
1.1	2
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2.1	4	To ensure consistent performance of our tools on a variety of images, we apply a standard preprocessing strategy that consists of the following steps:
1.1	5
2.1	6	* Invert so that background is black
	7	* Remove background gradient, by fitting a linear model through points sampled just outside the tissue
	8	* Remove background with OneCut (optional)
	9	* Enhance contrast with CLAHE (optional)
	10	* Resize images to common size
	11	* Center images
1.1	12
2.1	13	The steps are implemented as part of the registration pipeline collab:
1.1	14
2.1	15	[[https:~~/~~/drive.ebrains.eu/d/67ca7ef8c35b45ec99b9/>>https://drive.ebrains.eu/d/67ca7ef8c35b45ec99b9/]]

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Morphology Alignment Tool

Image preprocessing