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3. Image registration to reference atlas using QuickNII

Version 5.3 by puchades on 2020/03/24 18:38

BICCN_QNII_figure.png

Preparation of the image serie

Resize your raw 2D images to 24-bit PNG and JPEG. Images can be loaded up to the resolution of 16 megapixels (e.g.4000x4000 or 5000x3000 pixels), however QuickNII does not benefit from image resolutions exceeding the resolution of the monitor in use.

The resized files must follow the naming convention having an unique ID in the format: sXXX.., with XXX.. reflecting the serial order and spacing of the sections (e.g. s002, s006, s010 for every 4th section starting with section 2).

Generate your images descriptor file with FileBuider

Use the small program “FileBuilder.bat” provided with QuickNII. A new window will open, and ask for the folder where your images are located. Point to the correct folder, mark all image files, and click ok. An XML file is generated. Always save this file in the same folder as the resized images.

Open QuickNII and load your images