Automated

This Jython script illustrates how to make an image interactive. It let you play chess within Fiji!

Draws a contour plot on top of a sequence.

in CP 2.1, it was "ApplyThreshold". Renamed to "Threshold" from 3.0. 

The Graph Cut plugin provides a way to obtain a globally smooth binary segmentation. As input, you have to provide a gray-scale image that represents the pixel affinities for belonging to the foreground. Via a single parameter you can adjust the smoothness of the segmentation.

EnhanceOrSuppressFeatures enhances or suppresses certain image features (such as speckles, ring shapes, and neurites), which can improve subsequent identification of objects.

The plugin performs stitching of images of a tiled scan to reconstruct the image of the whole sample.

KNIME is a user-friendly graphical workbench for the entire analysis process: data access, data transformation, initial investigation, powerful predictive analytics, visualisation and reporting. Its an open integration platform and provides over 1000 modules (nodes), including those of the KNIME community and its extensive partner network. One of these extensions adds the ability for image analysis allowing to process, segment and further analyze images which can easily be used in combination with the other extensions, potentially from other fields.