Automated

Fills holes below a given threshold. 3D data is currently processed slice per slice.

Add a layer on an image to display the detections

Translate the tracks so that first detection is at 0,0,0 location.

Track Processor to color tracks in the Track Manager

Crop crops or masks an image.

This module crops images into a rectangle, ellipse, an arbitrary shape provided by you, the shape of object(s) identified by an Identify module, or a shape created using a previous Crop module in the pipeline.

not available anymore in version 3.0 and up?

3D reslicing and threshold-enabled 3D visualization.

Fills the holes in all the ROI of the active sequence (also works in Protocols).

Import Matlab *.mat files as sequences in Icy.

OverlayOutlines is a module from CellProfiler to place outlines of objects over a desired image.

DEPRECATED

Use coloc 2!

This plugin extracts groups of connected pixels in 2D and 3D based on their intensity and that of the background. Works on both binary and gray-scale data. Output can be pushed to the swimming pool for other plug-ins to further exploit the extracted objects.

A TrackProcessor that allows the user to monitor, visualize, and export, the intensity profile of tracks in time lapse sequences of 2D images.

This display the Instant Speed of tracks for the Icy Track Manager.

**RescaleIntensity** changes the intensity range of an image to your desired specifications.

This module lets you rescale the intensity of the input images by any ofseveral methods. You should use caution when interpreting intensity and texture measurements derived from images that have been rescaled because certain options for this module do not preserve the relative intensities from image to image.