Difference between revisions of "DS4H Image Alignment"

m (DS4H moved page User:DS4H to DS4H: I want to get rid of the User: preable)
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| name                  = DS4H Image alignment
 
| name                  = DS4H Image alignment
 
| maintainer            = {{DS4H}}
 
| maintainer            = {{DS4H}}
| author                = Stefano Belli;
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| author                = Stefano Belli; Antonella Carbonaro; Filippo Piccinini
Antonella Carbonaro;
 
Filippo Piccinini
 
  
 
| source                = {{GitHub|org=fiji|repo=VIB|source=Align_Image.java}}
 
| source                = {{GitHub|org=fiji|repo=VIB|source=Align_Image.java}}
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== Description ==
 
== Description ==
  
Data Science for Health (DS4H) Image Alignment is a plugin developed to overlap biological images by specifying few visible reference marks.
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Data Science for Health (DS4H) Image Alignment is a plugin developed to align biological images by manually specifying visible reference marks.
The overlapping is done by automatically implementing a least-squares method that approximates the solution of the mathematical overdetermined system, so to define the registration matrix then used for aligning the different images.
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Warping of the single original images is done according to a least-squares method that approximates the solution of the mathematical overdetermined system, so to define the registration matrix then used for aligning the different images.
  
It also considers rotations and scale changes in case the images to be aligned are dilated/shrinked.  
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It also considers rotations and scale changes in case the images to be aligned are dilated/shrinked.
  
Finally, it provides an iterative subroutine for a fine alignment, to easily reach a very good image co-registration quality.  
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Finally, it provides an iterative subroutine for a fine alignment, to easily reach good image co-registration quality.  
  
 
== Image support ==
 
== Image support ==
  
All the most common biological image formats (like .svs, .ndpi2 etc.) are supported and openable directly from the plugin.
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All the most common biological image formats (like .tiff, .svs, .ndpi2, etc.) are supported and openable directly from the plugin.
This has been possible Thanks to the use of the [[Bio-formats]] library.
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This has been possible thanks to the use of the [[Bio-formats]] library.
  
 
[[Category:Tutorials]]
 
[[Category:Tutorials]]
 
[[Category:Plugins]]
 
[[Category:Plugins]]
 
[[Category:Registration]]
 
[[Category:Registration]]

Revision as of 10:19, 21 August 2019

DS4H Image alignment (ImageJ)
Author Stefano Belli; Antonella Carbonaro; Filippo Piccinini
Maintainer Template:DS4H
Source on GitHub
Initial release 08/06/2019
Latest version 13/08/2019
Development status stable
Category Category:Registration



Description

Data Science for Health (DS4H) Image Alignment is a plugin developed to align biological images by manually specifying visible reference marks. Warping of the single original images is done according to a least-squares method that approximates the solution of the mathematical overdetermined system, so to define the registration matrix then used for aligning the different images.

It also considers rotations and scale changes in case the images to be aligned are dilated/shrinked.

Finally, it provides an iterative subroutine for a fine alignment, to easily reach good image co-registration quality.

Image support

All the most common biological image formats (like .tiff, .svs, .ndpi2, etc.) are supported and openable directly from the plugin. This has been possible thanks to the use of the Bio-formats library.