Short Description

View 3D data in three orientations simultaneously (XY, YZ, XZ)

Source code: https://gitlab.pasteur.fr/bia/orthoviewer

Documentation

This plug-in allows orthogonal views of 3D imaging data (time lapse or not).

To activate this view mode, select the “Orthoviewer” logo in the viewer window (in the dropdown list that defaults to “2D” mode). Note that colormaps are the same as in the default 2D view, but can be likewise adjusted from the inspector panel.

Once in orthogonal view mode, a crosshair will indicate the correspondence of the current position in all views simultaneously. You may click and drag the mouse around in any of the views to drag the crosshair around and adjust all other views in real-time. In case the 3D data has a different spatial resolution in the Z axis, the size of the side views and the thickness of the crosshair will automatically adjust to visually represent this resolution gap.

4 reviews on “3D OrthoViewer”

  1. o
    overthere
    Thanks for the plugin. If I could make a suggestion for improvement it would be to add lines showing the z position of the slice in the yz and xz side views. I'm using the slice traveller plugin at the minute but that doesn't match the standard way this style of data is presented in the literature.
  3. s
    Very useful thx for the screenshot update
  4. K
    Just wonderful. Really useful. Thanks a lot for the update to make the crosshair invisible.

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Changelog

  • Version 2.0.7.0 • Released on: 2016-04-24 16:28:07
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    Description:

    Opened access to the internal view components

  • Version 2.0.6.0 • Released on: 2016-03-18 16:37:30
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    Description:

    * Fixed an issue causing the cross hair not to display properly
    * Added an option to remove the cross hair altogether

  • Version 2.0.5.0 • Released on: 2016-02-11 13:41:59
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    Description:

    Fixed a rare issue in the graphical interface

  • Version 2.0.4.0 • Released on: 2015-12-04 15:10:04
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    Description:

    Fixed a minor bug that may cause an error while initialising the plugin.

  • Version 2.0.3.0 • Released on: 2015-03-19 19:27:38
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    Description:

    Refactored and improved rendering routine

  • Version 2.0.2.0 • Released on: 2015-01-27 18:37:08
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    Description:

    * Fixed crosshair size in all views
    * Fixed screenshot not taking crosshair into account
    * Fixed screenshot not displaying all Z slices properly

  • Version 2.0.1.0 • Released on: 2014-12-17 22:16:47
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    Description:

    * Fixed screenshot
    * Fixed size of gray side bars

  • Version 2.0.0.0 • Released on: 2014-05-12 21:01:55
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    Description:

    - Updated to Icy 1.4.3.5
    - Minimal zoom support

  • Version 1.1.1.0 • Released on: 2013-10-07 15:22:26
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    Description:

    Fixed a bug causing the viewer to disregard the user-selected colormap on the XY plane view

  • Version 1.1.0.0 • Released on: 2013-08-22 18:53:54
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    Description:

    * Fixed a long-lasting bug causing annoying error messages
    * Improved graphical interface with support for 2D ROI viewing and editing

  • Version 1.0.2.0 • Released on: 2013-04-25 16:03:28
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    Description:

    * Applied similar patch as in the previous version to avoid a bug in the XZ side view creation
    * Removed problematic test code

  • Version 1.0.1.0 • Released on: 2013-04-10 19:16:55
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    Description:

    Finally found the origin of the "index out of bounds" bug. This new version fixes it, although not cleanly

  • Version 1.0.0.1 • Released on: 2013-02-04 11:02:28
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    Description:

    Removed debug line (was removing a specific slice for test purposes)

  • Version 1.0.0.0 • Released on: 2013-01-30 17:11:51
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    Description:

    * Added crosshair in side views
    * Inverted XZ view to match Z slider orientation
    * Fixed interface behavior: Z slider now updates when clicking in side views
    * Fixed Z scale not used properly for interacting with side views
    * Improved performance

    Thanks for the user feedback !

  • Version 0.2.0.0 • Released on: 2013-01-30 11:36:50
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    Description:

    Fixed issue when displaying stacks with missing slices (affects 3D and 3D+time sequences)

  • Version 0.1.0.0 • Released on: 2012-12-14 15:24:11
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    Description:

    * Fixed several out-of-bounds issues
    * Side views are now stretched according to the Z/X and Z/Y pixel size ratios

  • Version 0.0.4.0 • Released on: 2012-11-15 09:53:52
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    Description:

    Fixed another issue when viewing stacks with missing frames

  • Version 0.0.3.0 • Released on: 2012-10-30 14:06:29
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    Description:

    Fixed an issue when viewing stacks with missing frames

  • Version 0.0.2.0 • Released on: 2012-10-10 17:49:20
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    Description:

    Look-Up Tables (colormaps) changes now appear in the viewer

  • Version 0.0.1.0 • Released on: 2012-08-09 10:59:37
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