Difference between revisions of "Elastix"

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(Overview)
 
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Elastix is a FIJI plugin that wraps [http://elastix.isi.uu.nl/ elastix] into a graphical user interface. Elastix is a collection of algorithms that are commonly used to solve image registration problems. Both 2D and 3D as well as multi-channel registrations are supported. Several rigid (translation, Euler, similarity, and affine) as well as locally deformable (BSpline) registrations are supported. For more information please visit the GitHub [https://github.com/embl-cba/fiji-plugin-elastixWrapper#fiji-plugins-for-running-elastix-and-transformix README].
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Elastix is a Fiji plugin that wraps [http://elastix.isi.uu.nl/ elastix] into a graphical user interface. elastix is a collection of algorithms that are commonly used to solve image registration problems. Both 2D and 3D as well as multi-channel registrations are supported. Several rigid (translation, Euler, similarity, and affine) as well as locally deformable (BSpline) registrations are supported. For more information please visit the GitHub [https://github.com/embl-cba/fiji-plugin-elastixWrapper#fiji-plugins-for-running-elastix-and-transformix README].
  
 
== Installation ==
 
== Installation ==
  
Elastix can be installed from the ImageJ update site: http://sites.imagej.net/EMBL-CBA. For details on how to install an update site click [[Following_an_update_site|here]].
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Elastix is available from the ImageJ update site: http://sites.imagej.net/EMBL-CBA.  
  
To start Elastix in ImageJ, select `Plugins > Registration > Elastix > Elastix` from the main menu.
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For details on how to install an update site click [[Following_an_update_site|here]].
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To use this plugin you also need to install elastix itself, as described [https://github.com/embl-cba/fiji-plugin-elastixWrapper/blob/master/README.md#install-elastix-binary here].
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To start Elastix in ImageJ, select Plugins > Registration > Elastix > Elastix from the main menu.
  
 
== Citation ==
 
== Citation ==
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You can cite this plugin like this:
 
You can cite this plugin like this:
  
- Tischer, C. (2019). ElastixWrapper: Fiji plugin for 3D image registration with elastix. Zenodo. http://doi.org/10.5281/zenodo.2602549
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- C. Tischer (2019). ElastixWrapper: Fiji plugin for 3D image registration with elastix. Zenodo. http://doi.org/10.5281/zenodo.2602549
  
 
Please also cite the original elastix software:
 
Please also cite the original elastix software:

Latest revision as of 12:51, 23 April 2019

Elastix (Fiji)
Author Christian Tischer
Update site EMBL-CBA
Maintainer Christian Tischer
Source on GitHub



Overview

Elastix is a Fiji plugin that wraps elastix into a graphical user interface. elastix is a collection of algorithms that are commonly used to solve image registration problems. Both 2D and 3D as well as multi-channel registrations are supported. Several rigid (translation, Euler, similarity, and affine) as well as locally deformable (BSpline) registrations are supported. For more information please visit the GitHub README.

Installation

Elastix is available from the ImageJ update site: http://sites.imagej.net/EMBL-CBA.

For details on how to install an update site click here.

To use this plugin you also need to install elastix itself, as described here.

To start Elastix in ImageJ, select Plugins > Registration > Elastix > Elastix from the main menu.

Citation

You can cite this plugin like this:

- C. Tischer (2019). ElastixWrapper: Fiji plugin for 3D image registration with elastix. Zenodo. http://doi.org/10.5281/zenodo.2602549

Please also cite the original elastix software:

- S. Klein, M. Staring, K. Murphy, M.A. Viergever, J.P.W. Pluim, "elastix: a toolbox for intensity based medical image registration," IEEE Transactions on Medical Imaging, vol. 29, no. 1, pp. 196 - 205, January 2010.

- D.P. Shamonin, E.E. Bron, B.P.F. Lelieveldt, M. Smits, S. Klein and M. Staring, "Fast Parallel Image Registration on CPU and GPU for Diagnostic Classification of Alzheimer’s Disease", Frontiers in Neuroinformatics, vol. 7, no. 50, pp. 1-15, January 2014.