This is a repository for ImageJ plugins, macros and scripts that were developed in Computing in Signals and Images in Medicine Laboratory (CSIM). Here it is available the Java source code and scripts for each application, where you can download and adapt for your needs. Additionally, if you want purpose an improvement for any of our methods, please fork this repository and send us a pull request.
Please, note that the ImageJ version which we are working on is related with the Fiji project (ImageJ2). Visit the Fiji wiki for more informations.
1. Anomalous Diffusion Filters
2. MRI Perfusion
3. Noise Generator
4. Sample Entropy for 2D images (SampEn2D)
The easiest way to install our Plugins is using the Updater menu provided in ImageJ. 1. Click on Help > Update... 2. Click on "Manage update sites" button and check the "CSIM Laboratory" option 3. Click on Close button 4. Choose the tools that you want to install. Please, note that some of our tools have depencies with each other, and for this reason some additional plugins may be needed to install. Do not worry about it, because ImageJ identify those depencies automatically. 4. Restart ImageJ and go to Plugins menu to find the new PlugIns that you just installed
All methods have a wiki page in www.image.net that explains more about each PlugIn functionalities and parameters settings.
All methods are under the Creative Common v4.0 license, which states that you are free to download, use, modify and distribute these tools as you wish. However, if you use any of this methods in your own research, please cite it properly. Search for details about the correct reference to cite each methods provided here in the wiki page.
This repository is provided by the CSIM research group and if you want to give us a feedback or report a problem, please send an email to:
MSc. Antonio Carlos da S. Senra Filho (Ph.D. student): email
Prof. Ph.D. Luiz Otavio Murta Junior (PI): email
or enter in our group website to see more about our research projects!