Difference between revisions of "Fiji"

(Improved headline)
(Projects)
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;[http://132.187.25.13/home/?category=Download&page=Viewer3D 3D Viewer]
 
;[http://132.187.25.13/home/?category=Download&page=Viewer3D 3D Viewer]
:hardware-accelerated 3D volume and mesh visualization, and 3D registration of image stacks.
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* Hardware-accelerated 3D volume and mesh visualization, and 3D registration of image stacks.
 
;[http://www.ini.uzh.ch/~acardona/trakem2.html TrakEM2]
 
;[http://www.ini.uzh.ch/~acardona/trakem2.html TrakEM2]
:register/edit/analyze/segment/annotate/3D model terabytes of confocal and electron microscopy images.
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* Register/edit/analyze/segment/annotate/3D model terabytes of confocal and electron microscopy images.
 
;[[Plugins_Menu#Feature_Extraction|Feature extraction]]
 
;[[Plugins_Menu#Feature_Extraction|Feature extraction]]
:SIFT and MOPS.
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* SIFT and MOPS.
 
;[[Plugins_Menu#Registration|Image registration]]
 
;[[Plugins_Menu#Registration|Image registration]]
:consistent and elastic 2D registration ([http://biocomp.cnb.uam.es/~iarganda/bUnwarpJ/ bUnwarpJ])
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* Consistent and elastic 2D registration ([http://biocomp.cnb.uam.es/~iarganda/bUnwarpJ/ bUnwarpJ])
:[[Register_Virtual_Stack_Slices|stack slice registration]]
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* [[Register_Virtual_Stack_Slices|Stack slice registration]]
:image montage (via [http://www.ini.uzh.ch/~acardona/trakem2.html TrakEM2]) with global optimization (in 2D and across sections)
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* Image montage (via [http://www.ini.uzh.ch/~acardona/trakem2.html TrakEM2]) with global optimization (in 2D and across sections)
 
;[[Stitching 2D/3D]]
 
;[[Stitching 2D/3D]]
:stitch multiple image stacks across X,Y,Z.
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* Stitch multiple image stacks across X,Y,Z.
 
;[[Plugins_Menu#Segmentation|Segmentation]]
 
;[[Plugins_Menu#Segmentation|Segmentation]]
:[http://homepages.inf.ed.ac.uk/s9808248/imagej/tracer/ Simple Neurite Tracer]
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* [http://homepages.inf.ed.ac.uk/s9808248/imagej/tracer/ Simple Neurite Tracer]
:[http://132.187.25.13/home/?category=Download&page=SegmentationEditor Segmentation Editor]
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* [http://132.187.25.13/home/?category=Download&page=SegmentationEditor Segmentation Editor]
:manual (via [http://www.ini.uzh.ch/~acardona/trakem2.html TrakEM2]), [[Plugins_Menu#Segmentation|Level Sets]].
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* Manual (via [http://www.ini.uzh.ch/~acardona/trakem2.html TrakEM2])
 +
* [[Plugins_Menu#Segmentation|Level Sets]].
 
;[http://repo.or.cz/w/imageja.git/ ImageJA]
 
;[http://repo.or.cz/w/imageja.git/ ImageJA]
:the core of Fiji.
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* The core of Fiji.
  
 
== Downloads ==
 
== Downloads ==

Revision as of 05:21, 16 October 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
ImageJA
  • The core of Fiji.

Downloads

See the Downloads page for debian packages and others.

License

Fiji is released under the General Public License.

Each component has its own license.