time-series

This plugins allows debleaching of time sequences of fluorescence images.

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.

This tool compute measures on the ROIs of the chosen sequence, updates the measures live when ROIs are changed and allows to copy/paste the measures to 3rd-party sheet edition softwares. Measures include geometric (bounding box) and intensity information.

It can complement the default ICY built inROI table, where measurements such as volume meausirements, intensity measurements, ... are built in and can be exported as excel as well.