Automated

This plugin takes a sequence of image slices stored in a folder, and delivers a list of registered image slices (with enlarged canvas). One of the images in the sequence can be selected by the user as reference and it will remain intact.

The plugin can perform 6 types of image registration techniques:

• Translation
• Rigid (translation + rotation)
• Similarity (translation + rotation + isotropic scaling)
• Affine
• Elastic (via bUnwarpJ with cubic B-splines)
• Moving least squares

All models are aided by automatically extracted SIFT features.

Source code

Installation

This plugin is bundled with the Fijij package.

The purpose of the ImageJ Updater is to keep you up-to-date with all components of ImageJ (or Fiji), i.e. the macros, scripts, plugins and the core components (libraries) needed by the plugins.

As of 2011, the ImageJ Updater can handle 3rd-party update sites, i.e. anybody can set up their own update site which users can follow.

Allows the identification of objects by subtracting secondary objects from primary objects. For example allows to segment the cytoplasm by subtracting nuclei from cells. 

Produces an image with measured data on top of identified objects.

Fill holes in a binary image.

This plugin is a tutorial for the audio and video editing library Xuggler for developers. The slider will show the right image at the exact frame.

Computes RCC8D relationship in MereoTopology. Inputs should be labelled images in unsigned byte of short format.

Edge detection by Deriche's method.

Shows how to listen active sequence / viewer events.

The interface will show the image that you selected as the guiding image, overlaid with colored outlines of the selected objects (or filled objects if you choose). This module allows you to remove or edit specific objects by pointing and clicking to select objects for removal or editing. Once editing is complete, the module displays the objects as originally identified (left) and the objects that remain after this module (right). More detailed Help is provided in the editing window via the ‘?’ button. The pipeline pauses once per processed image when it reaches this module. You must press the Done button to accept the selected objects and continue the pipeline.

FilterObjects eliminates objects based on their measurements (e.g., area, shape, texture, intensity).

Details how to listen and use events provided by the main interface.