Open source software for image processing and analysis: picture this with ImageJ

Abstract: Image processing and analysis is fundamental to extract useful information from images. To achieve this end, open source image analysis software, exemplified by the Java application ImageJ, can be used very flexibility to create workflows and is open to customisation due to its open source architecture. ImageJ has a strong academic community with many macros, Java scripts and plug-ins available online, a help forum, regular updates and face to face conferences. Furthermore, running Java ensures that ImageJ is platform-independent so that executable code can be shared easily between researchers using different operating systems. Lastly, ImageJ can be integrated into workflows of other open source applications such as KNIME.