Modified version of MultiStackRegistration, for use from scripts.
- Brad Busse (Designer, Developer, - v 1.45)
- Kota Miura (Minor upgrades, v1.46)
- Mavenized, Scripting enabled, bug fixing.
- miura@cmci.info
Please add the plugin "MultistackReg" using Update Sites function in Fiji.
- briefly, [help > Update...], then in the Updater window, click "Manage Update Site", and tick "MultiStackReg" (also tick "BIG_EPFL" for the dependency) - close the window, click "Apply Changes". When downloading is done, please restart Fiji.
- ImageJ
- TurboReg
- http://bigwww.epfl.ch/thevenaz/turboreg/
- TurboReg is included in the UpdateSite package from "BIG_EPFL", so please simply add the site to your Fiji installation.
Welcome to MultiStackReg v1.5!
This plugin has three modes of use:
- Align a single stack of images
- Align a stack to another stack
- Load a previously created transformation file
Choose the image to be aligned in the Stack 1 dropdown box. Leave 'Align' in the Action 1 box.
Place the reference stack in Stack 1's box, and the stack to be aligned in Stack 2's box. Select 'Use as Reference' as Action 1 and 'Align to First Stack' as Action 2.
Place the stack to be aligned in either stack box, choose 'Load Transformation File' in its Action dropdown box. The File field can be used as a shortcut to avoid having to select the matrix manually.
http://wiki.cmci.info/javaapi/multiStackReg_/
See the thread below in the Forum for discussions, macro usages, and Q&As.
https://forum.image.sc/t/multistackreg-macro/174
This work is based on the following paper:
P. Thévenaz, U.E. Ruttimann, M. Unser
A Pyramid Approach to Subpixel Registration Based on Intensity
IEEE Transactions on Image Processing
vol. 7, no. 1, pp. 27-41, January 1998.
This paper is available on-line at
Other relevant on-line publications are available at
Additional help available at
Ancillary TurboReg_ plugin available at
You'll be free to use this software for research purposes, but you should not redistribute it without our consent. In addition, we expect you to include a citation or acknowledgment whenever you present or publish results that are based on it.
A few changes (loadTransform, appendTransform, multi stack support) to support load/save functionality and multiple stacks were added by Brad Busse ( bbusse@stanford.edu ) and released into the public domain, so go by their ^^ guidelines for distribution, etc.