The requirements to run the Neuroanatomy suite of plugins are twofold: i) Fiji (i.e., an ImageJ installation subscribed to the Fiji update site) and ii) Java 8 (as part of an active effort to modernize ImageJ). If you are running an older version of Java, you can either i) Download the latest Fiji release (newer releases come pre-bundled with Java 8); or ii) If you have downloaded Fiji while ago and want to keep your existing installation, you will have to download Java 8 and make your Fiji installation aware of it.
Subscribing to the Neuroanatomy update site:
- Run ›
- Click Manage update sites
- Select the Neuroanatomy checkbox (see also List of update sites)
- Click Apply changes and Restart ImageJ.
List of commands
|Strahler classifier||› ›||Described in Strahler Analysis|
|Summarize Skeleton||› ›||Bulk statistics of skeletonized images|
|Particles classifier||› ›||Tags segmented particles according to skeleton features|
|Tracings Importer||› ›||Renders traced reconstructions ( .traces - Simple Neurite Tracer's format - and .swc files) in ImageJ's 3D Viewer or as skeletonized image stacks|
|Fractal Trees||› ›||Synthetic images (L-System Trees) useful for debugging, testing or prototyping|