Flatmap Resources

Anatomical Flatmap Resources

Flatmap resources

Mapmaker

• Source code
• Documentation, feature requests, and issues
• Versioned releases

Mapmaker is a Python application that generates Mapbox compatible tilesets from a range of sources (currently including SVG drawings, MBF Biosciences segmented images, and PowerPoint slides). In conjunction with SCKAN, Mapmaker is used to render the flatmaps portraying the anatomy and nerve knowledge of species, as seen on the SPARC Portal Maps page.
Flatmaps can be generated and viewed by using the flatmap maker (mapmaker), server, and viewer. For more information on these flatmap resources see the SPARC Map Reuse documentation.

SCKAN

ApiNATOMY

Map-tools

Flatmap sources

base diagram for ac flatmap and anatomical diagrams: These are the manually-drawn cartoons which provide the base diagram for each species’ flatmap. They are archived in Physiome Project (PMR) as SVG images (e.g., rat flatmap sources). The SVG is annotated with the anatomical terminology used in SCKAN.

SVG File

JSON Files

Examples

MAP tools for Connectivity Knowledge

The map knowledge package provides a Python wrapper for flatmap-related SCKAN queries, and an additional package, map tools, allows SCKAN connectivity to be viewed and explored in a Jupyter notebook.

Flatmap viewer

This is a viewer for anatomical flatmaps generated by map maker. The viewer is intended to be a component of a larger JavaScript web application, although it may be used standalone for local flatmap development and testing. Flatmap content is obtained from a flatmap server. The viewer application is based on the MapLibre open-source mapping library and uses industry standard interchange formats for web-based geographical maps.

The flatmap viewer’s source code is hosted on Github, which is where issues and feature requests can be raised and documentation can be found here.

The viewer is integrated with the SPARC portal via the flatmapvuer Vue component (see below). It can be integrated into a map server to allow a server’s maps to be explored independently to the SPARC Portal, as described in the map server’s documentation.

Releases are versioned in Github and available from the NPM repository.

Flatmap server

The flatmap server is the infrastructure where the generated map tiles are archived and made accessible to a flatmap viewer for display of flatmaps.