And platform-dependent library files:
Put the above jar files into your ImageJ's plugins folder, and restart ImageJ.
Please see Installation for more details.
This ImageJ plugin contains two functions. The first one is the
cvMatch_Template. It implements the template matching function from
the OpenCV library. The java interface of OpenCV was done through the javacv library. It is quite similar as the existing template
matching plugin but runs much faster and users could choose among six matching methods:
|template|| best match
The second function Align_slices in stack utilized the previous matching function to do slice registration(alignment) based on a selected landmark. This function will try to find the landmark or the most similar image pattern in every slice and translate each slice so that the landmark pattern will be the same position through out the whole stack. It could be used to fix the drift of a time-lapse image stacks, as shown in the following example:
#New feature: subpixel registration, updated 2011/5/13. Please see here for details.
| before alignment
|| after alignment
||alignment with subpixel registration
(Physics of the Cytoskeleton and Morphogenesis, iRTSV/CEA, France)
-Download the system-dependent library files: 32-bit Windows , 64-bit Windows, 64-bit Mac, 32-bit Linux or 64-bit Linux and put the one corresponding to your system into your ImageJ's plugins folder
#2015/2/07: Recompiled to support most recent javacv/opencv libraries (v. 0.10)
#2014/7/23: Recompiled to support more recent javacv/opencv libraries (now supports win32, win64, mac64, linux32, linux64)
#2012/2/29: Added the pre-compiled opencv library file for the 64-bit window system. (Thanks Yevhen Katrukha for providing the library files)
# 2011/5/30: Fixed the memory leak issue caused by the OpenCV interface.
# 2011/5/13: Boundary area for searching landmark.
# 2011/5/13: Subpixel registration.
A: It occurs when the Java version used for ImageJ (Java 1.5.xxx for ImageJ-32bit in MacOS X, Java 1.6.xxx for ImageJ-64bit in MacOS X and all the window-versions) is not compatible with the Java version used for compiling this plugin (Java 1.6.xxxx). To avoid this use the 64-bit ImageJ in Mac.
#Q: The plugin launched correctly, but after entering the parameters in the dialog window or after selecting the ROI, I got a error message saying
"Plugin or class not found:"Align_slices"
A: It happens because ImageJ failed to find the javacv and jna interface. You probably forgot to put the javacv.jar and jna.jar along with the Template_Matching.jar into ImageJ's plugins folder. Please follow the steps written in the Installation part.
#Q: The plugin launched correctly, but after entering
the parameters in the dialog window or after selecting the ROI, I got a
error message saying
"java.lang.UnsatisfiedLinkError: Unable to load library 'cxcore': ..................."
A: It happens because the system failed to load the opencv library. You probably forgot to download and put the library files (32-bit on windows or 64-bit on Mac) into correct place (ex: C:\Program Files\ImageJ or /usr/lib). Please follow the steps written in the Installation part.
2. Tseng, Q. et al. Spatial Organization of the Extracellular Matrix Regulates Cell–cell Junction Positioning. PNAS (2012).doi:10.1073/pnas.1106377109
3. Tseng, Qingzong. 2011. “Study of multicellular architecture with controlled microenvironment”. Ph.D. dissertation, Université de Grenoble. http://tel.archives-ouvertes.fr/tel-00622264.