TrakEM2 is an ImageJ plugin for morphological data mining, three-dimensional modeling and image stitching, registration, editing and annotation.
- 3D Viewer|3D-Viewer-snapshot.jpg
The hardware-accelerated 3D Viewer uses Java3D to display surfaces, orthogonal slices and to perform volume rendering.
- Simple Neurite Tracer|SimpleNeuriteTracer-snapshot.jpg
The Simple Neurite Tracer allows you to segment linear structures in 3D images by marking both ends in 3D and letting the tracer work out the rest.
The Stitching plugin makes it a breeze to stitch multiple overlapping recordings of a single specimen into a single 3D image.
- Feature Extraction|FeatureExtraction-snapshot.jpg
The Feature Extraction plugins provide fully automatic detection of SIFT or MOPS features and registration using corresponding features of two images.
- Update Fiji|Updater-snapshot.jpg
Stay up-to-date with the Fiji Updater.
- 3D Viewer|3D_Viewer-snapshot.jpg
The 3D Viewer plugin can display 3D stacks via volume rendering, isosurfaces or as orthoslices.
The TrakEM2 plugin can be used to annotate images non-destructively.
The TrakEM2 plugin offers a range of manual and semi-automatic segmentation tools.
The SIOX plugin provides semi-automatic segmentation of color images via Simple Interactive Object Extraction.
- SPIM Registration|SPIM Registration-snapshot.jpg
The SPIM Registration plugin provides fast, reliable and high-precision registration and fusion of Selective Plane Illumination Microscopy data as well as other 3d multi-angle image acquisitions.
- TrakEM2|TrakEM2 neuronal reconstruction-snapshot.png