Difference between revisions of "Fiji"

(Downloads)
(Projects: edited level sets link)
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* [http://132.187.25.13/home/?category=Download&page=SegmentationEditor Segmentation Editor]
 
* [http://132.187.25.13/home/?category=Download&page=SegmentationEditor Segmentation Editor]
 
* Manual (via [http://www.ini.uzh.ch/~acardona/trakem2.html TrakEM2])
 
* Manual (via [http://www.ini.uzh.ch/~acardona/trakem2.html TrakEM2])
* [[Plugins_Menu#Segmentation|Level Sets]].
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* [[Level Sets]]
 
;[[:Category:Transform|Transform]]
 
;[[:Category:Transform|Transform]]
 
* [[Distortion correction]]: correct lens deformation induced by the microscope (optical and electron microscopy). See the [http://www.kaynig.de/downloads/DistortionCorrectionPlugin_Manual.pdf Distortion Correction plugin manual].
 
* [[Distortion correction]]: correct lens deformation induced by the microscope (optical and electron microscopy). See the [http://www.kaynig.de/downloads/DistortionCorrectionPlugin_Manual.pdf Distortion Correction plugin manual].

Revision as of 01:57, 5 November 2008


Fiji

Fiji Is Just ImageJ (batteries included)

Contents


Examples

TrakEM2: 359 montages of 13x13 tiles of 2048x2048 pixels each.

Stitching of images: Automatically reconstruct tiled 2D/3D acquisitions. The example shown (6 times 512x512x86 px) took 90 seconds.
3D Viewer: hardware-accelerated 3D visualization of image stacks as volumes, orthoslices and meshes.
Simple Neurite Tracer: semi-automatic tracing of neurons.

Feature correspondences: Automatically extracted landmark correspondences using the MOPS descriptor.

Projects

3D Viewer
  • Hardware-accelerated 3D volume and mesh visualization, and 3D registration of image stacks.
TrakEM2
  • Register/edit/analyze/segment/annotate/3D model terabytes of confocal and electron microscopy images.
Feature Extraction
  • SIFT and MOPS.
Image registration
Stitching 2D/3D
  • Stitch multiple image stacks across X,Y,Z.
Segmentation
Transform
VIB Protocol
  • Label-based 3D alignment of image stacks.
ImageJA
  • The core of Fiji.

Downloads

Update: the MacOSX version crashed on most Macs; the link below points to a fixed version.

See the Downloads page for debian packages and others.

License

Fiji is released under the General Public License.

Each component has its own license.