ROI Panel

ROI panel provides a way to add one or more ROI (Region of Interest) above the image. The ROIs may be used to analyse or do filtering in only the ROI defined parts of the dataset.

The implementation of the ROI mode was updated in MIB version 0.998 using the code of the Image Measurement Utility written by Jan Neggers, Eindhoven Univeristy of Technology.

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The ROI type ▼ dropdown
Define parameters manually
[✓] Fix aspect ratio
The Add button
The Remove button
The ROI to Selection button
ROI List
Options
The Load button
The Save button
[✓] Show label
[✓] Show ROI

The ROI type ▼ dropdown

Define the type of ROI to add. Several ROI types are available. By default, an interactive mode for placing the ROIs is enabled. However, it is possible to add ROIs manually using the Define parameters manually panel under the ROI type combo box.

Rectangle, rectangular ROI. To add, press the Add button and define two corners of the ROI using the left mouse button. Modify the ROI if needed and double click above the ROI to accept it
Ellipse, ellipsoid ROI. To add, press the Add button and define the center and a side of the ellipse using the left mouse button. Modify the ROI if needed and double click above the ROI to accept it
Polyline, adds a polyline object with the desired number of vertices. The number of vertices can be selected in the Define parameters manually panel. To add, press the Add button and click as many times as the number of defined vertices. Modify the ROI if needed (it is possible to add extra vertices: press and hold the A key followed by pressing the left mouse button to add a new vertex). To remove a vertex, press the right mouse button above the vertex and select Delete. Finally, double click above the ROI to accept it
Lasso, a freehand drawing of a ROI. To add, press the Add button, hold the left mouse key while drawing the ROI. After the ROI has been drawn, it is converted into the ROI polyline object with a suggestion for reducing the number of vertices (a large number of vertices reduces the rendering of images significantly, so it is recommended to reduce the number of vertices during this conversion to the ROI polyline).

Define parameters manually

This panel offers a posibility to place ROI to specific position. To do that, please check the [✓] manually checkbox and provide required coordinates. When done press the Add button to add a ROI.

[✓] Fix aspect ratio

This checkbox can be used to fix aspect ratio of ROIs during initial placing or later during their modification.

The Add button

Press the Add button to add a ROI to the image.

The Remove button

Press the Remove button to delete a ROI highlighed in the ROI list.

The ROI to Selection button

Add area under the shown ROI to the Selection layer.

ROI List

The ROI List may be used to select single or all ROIs for filtering or analysis. Additional actions are available for the ROIs:

Rename, change the name of ROI
Edit, modify position of the ROI. Use double click to finish the editing. The A key shortcut allows to add a vertix to the polyline type of ROIs
Remove, delete the ROI from the list

Options

Define visualization options for ROIs. It is possible to tweak type, size, and color of the markers, width and color of the lines, color and size of the label

The Load button

Load ROIs from a disk.

The Save button

Save the ROIs information to disk in MATLAB format (a structure with label, type, X, Y, orientation fields).

[✓] Show label

When enabled, a text field with the ROI's label is displayed in the Image View panel.

[✓] Show ROI

When checked the ROIs are shown in the Image View panel. Alternatively the viewing state of the ROI objects may be switched using the |R| button in the Toolbar.