Scalable Brain Atlas  site map

Site map

Displays all public pages as a hierarchical tree

Scalable Brain Atlas
coronal3d
Interactive 3d atlas viewer (coronal)
The main atlas viewer, based on 3d display of coronal sections
hierarchy
Complete brain region hierarchy
Interactively displays the brain region hierarchy for a given template, including all structures without visible representation in the template
site map
This page
Scalable Brain Atlas - Neuroanatomy at your fingertips
Home page with an overview of the supported atlas templates and services
services
Matlab analysis
Analyze atlas templates in Matlab
This service lets you download slices and matlab-scripts to your computer, to create advanced 3D visualizations using your local installation of Matlab.
disctance matrix
Matrix with euclidian distances between region centers within a hemisphere.
Returns a table (tab-separated) with the euclidian distances [mm] between region centers within a hemisphere, for a given atlas template
list regions
Lists all regions belonging to the given template
Returns a table (tab-separated) with all regions contained in a given template, their full names, place in the region hierarchy and whether they are a visible structure in the Scalable Brain Atlas
list templates
List of supported atlas templates
Returns a html-table with all supported atlas templates, including their title and species
neuroVIISAS contours
Export brain region contours to neuroVIISAS-compatible XML
neuroVIISAS is a platform for mapping, visualization and analysis of connectivity data from tracing studies
neuroVIISAS hierarchy
Export brain region hierarchy to neuroVIISAS-compatible XML
neuroVIISAS is a platform for mapping, visualization and analysis of connectivity data from tracing studies
region by coordinate
Find region by coordinate
This service outputs the name of a brain region, given a stereotaxic coordinate as input.
region centers
Region centers (optimized for label placement)
Returns a table (tab-separated) with columns [acronym | rgb-value | x | y | z], where x (left-right), y (posterior-anterior), z (inferior-superior) are the region centers in [mm] optimized for label placement. They are obtained by peeling of the discretized region volume until a single point remains, see regionCenters_3d.m (download m-files).
rgb slice
Color-coded PNG (bitmap) or SVG (vector) image of a brain atlas slice
Returns a color-coded SVG or PNG image of a single brain atlas slice. Get the color scheme from the 'list regions' service. Warning: the PNG image is produced using the RSVG library, which has the shortcoming that anti-aliasing can't be turned off. As a result, border pixels get interpolated RGB values that do not map to a valid brain region.
thumbnail
Region thumbnail in 2D (slice) or 3D (stack of slices)
Returns a region thumbnail in 2D (slice), 3D (stack of slices), or both.