In a joint project, we work towards using
ImageJ in the context of neuroanatomy. The people involved are:
- Baker, Dean
- Jenett, Arnim
- Grübel, Kornelia
- Heisenberg, Martin
- Larkworthy, Tom
- Longair, Mark
- Schindelin, Johannes
- Schmid, Benjamin
AmiraMesh Reader / Writer
In the Würzburg group, we work a lot with
and we work a lot with ImageJ.
To make the work easier, we wrote plugins
to read and write 3d stacks in the Amira Mesh format in ImageJ.
Amira Surface Viewer
Amira can write 3d surface files. These can be loaded and visualized
in ImageJ with the ShowAmiraSurface
Tom Larkworthy wrote the ROI Brush, a tool which
does not paint, but instead (un)selects circular regions.
Delaunay / Voronoi diagram
Gabriel Landini had this on his wishlist...
Two Point Correlation
This plugin plots a
correlation / distance graph. It was requested by Paul Stutzman,
but I have not heard back from him.
With this plugin, you can select
the current slice with your mouse wheel.
Use this plugin to align an image to a
template image, by selecting a line in both images.
Moving Least Squares
Warp an image using a technique
presented by Schaefer et al. in Image Deformation Using Moving Least
This plugin makes an isosurface from
an image stack. It displays the result in a 3d window (you can zoom,
pan and rotate the surface), and optionally saves the result as a VRML.
This plugin offers 3D visualisation
of image stacks. This covers texture based volume rendering as well as
surface extraction and visualisation.