kretep/ijp-toolkit

ijp-toolkit general purpose plugins for ImageJ (also known as ij-plugins_toolkit)

IJ-Plugins Toolkit

IJ-Plugins Toolkit is a set of plugins for ImageJ. The plugins are grouped into:

• 3D IO - import and export of data in 3D formats.

• 3D Toolkit - operations on stacks interpreted as 3D images, including morphological operations.

• Color - color space conversion, color edge detection (color and multi-band images).

• Filters - fast median filters, coherence enhancing diffusion, and various anisotropic diffusion filters.

• Graphics - Texture Synthesis - A plugin to perform texture synthesis using the image quilting algorithm of Efros and Freeman.

• Segmentation - image segmentation through clustering, thresholding, and region growing.

ImageJ Plugins Installation

Automatic Installation Through Update Center

For ImageJ 2 or Fiji you can install IJ-Plugins Toolkit using update center:

http://sites.imagej.net/IJ-Plugins/

Manual Installation

1. Download latest binaries for IJ-Plugins Toolkit. Look for version with the highest number. Plugin binaries will be in file named: ij-plugins_toolkit_bin_*.zip.

2. Uncompress content of ij-plugins_toolkit_bin_*.zip to ImageJ's plugins directory. You can find location of ImageJ plugins directory by selecting in ImageJ "Plugins"/"Utilities"/"ImageJ Properties", look for value of tag "plugins dir" near the bottom of the displayed Properties' window.

3. Restart ImageJ to load newly installed plugins.

Using as a Stand-alone Library

There are some examples of using IJ-Plugins Toolkit as a stand-alone library in the [examples] folder. You will need to add dependency on:

groupId   : net.sf.ij-plugins
artifactId: ijp-toolkit
version   : 2.1.2

For instance, for SBT it would be:

"net.sf.ij-plugins" %% "ijp-toolkit" % "2.1.2"

Running from source

You can build and run the plugins within ImageJ using SBT task ijRun

sbt ijRun

It will build the code, setup plugins directory, and the start ImageJ. ijRun is provided by SBT plugin sbt-imagej.