AnonyMI

AnonyMI is a tool for deidentifying MRIs while preserving the geometrical properties of the images. It uses a relatively low-resolution 3D reconstruction of the face to crop the MRI volume in order to keep the shape of the head and the face but remove identifiable information. It is implemented as a plug-in of 3D Slicer, a widely used software for 3D visualization and analysis, and includes a use-friendly interface, manual and automatic selection of the areas to mask, a batch processing mode for large datasets, fast and efficient 3D rendering of the results for quality control, and a command line interface.

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AP EPM

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siibra-explorer

siibra-explorer is built around an interactive 3D view of the brain displaying a unique selection of detailed templates and parcellation maps for the human, macaque, rat or mouse brain, including BigBrain as a microscopic resolution human brain model at its full resolution of 20 micrometres.

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MeshView

MeshView is a web application for real-time 3D display of surface mesh data representing structural parcellations from volumetric atlases, such as the Waxholm Space Atlas of the Sprague Dawley Rat Brain. MeshView is available as an EBRAINS community app, accessible via a collab (further info: https://wiki.ebrains.eu/bin/view/Collabs/image-registration-and-analysis-demo/) Key features: orbiting view with toggleable opaque/transparent/hidden parcellation meshes rendering user defined cut surface as if meshes were solid objects rendering point-clouds (simple type-in, or loaded from a JSON format) coordinate system is compatible with QuickNII (https://www.nitrc.org/projects/quicknii)

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