Short Description

A simple tool to correct chromatic shifts as well as temporal drift (including translations and rotations), based on spectral correlation.

Team: Bio Image Analysis Unit
Institution: Institut Pasteur
Website: https://icy.bioimageanalysis.org
Source code: https://gitlab.pasteur.fr/bia/rigid-registration

Documentation

This plug-in performs rigid registration (translation and rotation) between images using a basic cross-correlation technique.

Features

Simple mode: calculates and corrects translation and rotation artefacts with respect to a specified reference channel (for chromatic correction) or time point (for drift correction).

Advanced mode: calculates the transform between two images, and apply the transform to a third dataset (useful when using e.g. beads as fiducial markers to calibrate an imaging system). This mode is currently limited to chromatic correction.

How this works

Given two images, translation artefacts are calculated by cross-correlating of the modulus or their frequency spectra (obtained via the Fast Fourier Transform), while rotation artefacts are calculated by cross-correlating their Log-Polar Trasnform.

The full correction workflow comprises 3 sequential steps: translation, rotation, and a final translation.

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Changelog

  • Version 1.4.1.0 • Released on: 2023-12-08 10:00:00
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    Description:

    Fixed error on protocol block when no active sequence (Jacques Pecreaux contribution)

  • Version 1.4.0.0 • Released on: 2021-02-03 11:00:00
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    Description:

    - can now apply the registration (temporal / Simple mode) to a second sequence.
    - added block / protocols support
    Thanks to Jacques (aka Jacques2020) from Image.SC forum for his contribution !

  • Version 1.3.0.0 • Released on: 2020-04-06 13:05:00
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    Description:

    Updated dependencies for Icy 2.1

  • Version 1.2.1.0 • Released on: 2017-09-19 18:35:11
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    Description:

    Fixed an issue when using the API without a user interface

  • Version 1.2.0.0 • Released on: 2017-09-18 20:03:03
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    Description:

    Drift correction now offers the option to grow, preserve or shrink the size of the corrected sequence

  • Version 1.1.0.0 • Released on: 2017-09-13 16:13:06
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    Description:

    Added a new option to register time sequences w.r.t. the previous frame (instead of a chosen fixed frame)

  • Version 1.0.8.0 • Released on: 2017-02-24 14:35:22
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    Description:

    Fixed an issue with the advanced mode where negative rotations were not corrected

  • Version 1.0.7.0 • Released on: 2017-02-23 17:39:36
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    Description:

    Fixed an issue with the advanced chromatic registration causing the wrong sequence to be registered

  • Version 1.0.6.0 • Released on: 2016-12-11 16:02:17
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    Description:

    Added a stop button to halt a running process

  • Version 1.0.5.0 • Released on: 2016-11-07 17:43:52
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    Description:

    Fixed an issue causing applyRotation2D(...) and applyTranslation2D(...) not to work on single image sequences

  • Version 1.0.4.0 • Released on: 2016-01-04 17:32:28
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    Description:

    Some fixes to the temporal registration not behaving properly

  • Version 1.0.3.0 • Released on: 2015-11-09 14:43:30
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    Description:

    Fixed a minor issue with the Z selector in the graphical interface

  • Version 1.0.2.0 • Released on: 2015-07-10 14:34:51
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    Description:

    Fixed the class path (again)

  • Version 1.0.1.0 • Released on: 2015-07-10 14:32:50
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    Description:

    Fixed the class path

  • Version 1.0.0.0 • Released on: 2015-07-06 03:05:44
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    Description:

    Apply a 3-step registration (translation + rotation + translation) for optimal results

  • Version 0.0.2.0 • Released on: 2015-07-03 11:32:42
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    Description:

    Fixed an issue with the advanced mode

  • Version 0.0.1.0 • Released on: 2015-06-26 16:43:43
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