Class: Border

 

The Border module is a new class for sliceOmatic 5.0.  This class enable you to add borders around the images.  This can be useful if part of the information you want to segment is outside the field of view.  Adding a border enable you to extrapolate outside the frame.  However, you will not be able to segment directly inside the border area.  You will have to first save the new frames (with their borders) as "GLI" images (they will be saved in DICOM format), and then re-load these images in sliceOmatic.

 

The Border class is enabled through the 2D Mode: "DB Class management" interface.  Once you have an instance of this class in your database tree, a new "Border" button will be present in the Modes menu.  This button will open the border's interface.

 

 

 

 

The Border module is a new class for sliceOmatic 5.0.  This class enable you to add borders around the images.This can be useful if part of the information you want to segment is outside the field of view.  Adding a border enable you to extrapolate outside the frame. 

 

However, you will not be able to segment directly inside the border area.  You will have to first save the new frames (with their borders) as "GLI" images (they will be saved in DICOM format), and then re-load these images in sliceOmatic.

 

The Gradient Amplification class is enabled through the 2D Mode: "DB Class management" interface.  Once you have a mixer in your database tree, a new "Border" button will be present in the Modes menu.  This button will open the border's interface.

Original Images

 

With borders

 

From the Graphic Interface

 

 

 

Instance selection

 

Select which of the instances of the class you want to work on.

Left

Enter the desired size (in pixels) for the 4 borders.  You can directly type in the desired values, or you can increase/decrease these values with the mouse wheel or with the "Page Up", "Page Down", "Home" and "End" keys.

 

 

 

Right

Top

Bottom

 

Update DB

Clicking on this button will apply these borders to the selected images.

 

 

Tagging inside the border

 

 

You can not tag pixels inside the border area. 

 

The pixel in the border area have a GLI value of "invalid" and can not be tagged.

 

 

 

However, you can save the frames with their borders using the "Save GLI Files" option from the "File" menu.  The frames will be saved as DICOM images.  These saved files will include the border.

 

 

 

When you re-load these new DICOM frames in sliceOmatic, the pixels from the border area are now part of the image.  They have a GLI value of "Outside" and are assigned the default "outside" color.  But you can now tag these pixels.

 

Note

In the surface/volume tool, the pixels that are tagged in the "outside" area are counted for the surface/volume computation, but are not counted when computing statistics on the values under the pixels (Mean, Min, Max...).

 

 

 

 

From the Display Area

 

There is no Display Area interaction specific to this class.

 

 

From the Keyboard

 

There is no keyboard interface specific to this class.

 

 

From the Command Line

 

There is no command line or variables directly associated with this class.