Fig. 3: Examples showing use of the WHS rat brain atlas.
From: Waxholm Space atlas of the rat brain: a 3D atlas supporting data analysis and integration
a,b, Two 3D surface visualizations of the atlas in the EBRAINS Siibra viewer tool, illustrating slicing of the atlas along standard coronal, sagittal and horizontal planes (a) or an arbitrary plane (b). c, An example showing a custom-made, semitransparent atlas image overlay on a spatially registered histological section image39 created using the QuickNII tool. d, Examples showing how selected brain regions of interest may be visualized in 3D, shown for a subset of orbitofrontal and parietal cortical regions (d1), striatopallidal areas (d2) and the thalamus (d3). e, A 3D visualization of many data points representing immunolabeled cells across the brain, color coded according to the atlas region from which they originate (e; see also Fig. 4). The examples represent generic use cases that can be achieved using a variety of tools (see main text for details).
