See short demo video of the new “Mask volume” and “Surface cut” Segment editor effects here: These effects were developed by Kyle Macneil (Med-i Lab, Queen’s University; SPL, Brigham and Women’s Hospital), with help from @lassoan and @fedorov . Thank you for your contribution! Mask volume: Blank…

Thank you for this nice tool! But, I noticed that masked image and segmentation did not become same shape. They are slightly different shape as shown in the attached image below. Is is bug? Could you give me any suggestion?

Yes, the mask is somewhat smoothed, see more information in this bug report . It is in easy fix, we just did not get to it yet, because the difference is so little that it is even hard to notice. Is this causing significant error for you? Are you a developer, would you be interested trying to fix i…

Yes, I am very interested in fix. I am Japanese radiologist in university hospital. I want to evaluate CT density histogram of lung nodule, but I don’t know how to do this by 3D slicer (Do you know this?). So, as an alternative way, I want to analyze masked images using ImageJ software. But if mas…

I have also confused by this bug. Thanks!

I’ve updated mask volume effect to use the segment’s binary labelmap representation instead of closed surface representation, so now it should work as you expected. The update is available if you reinstall Slicer or SegmentEditorExtraEffects extension on Jan 7 or later.

Hi Andras, I am using surface cut but it do not make a surface rather it only makes a surface for only working slice. How it automatically selects all slices. is there any key to use with it. Thank you Regards, Saima Safdar

Scissors effect affect all slices. Do you mean that you would like to cut all segments at once?

I want to select all segments using the surfacecut tool to have a surface but I am unable to do it as described in the video for surface cut for segmenting heart. the surface cut tool only selects the portion of segment using fiducials in the working slice.

New segment editor effects: Mask volume and Surface cut

Support

Fernando July 18, 2017, 8:56pm 2

They are awesome, thank you!

Slicer 4.8: Summary, Highlights and Changelog

Topic		Replies	Views
Missing Modules in Segment Editor Support	1	1125	March 30, 2018
Please add cropping and padding options to maskVolume effect in ExtraEffect tools Feature requests segmentation	7	566	May 25, 2019
About the scissors tool in the Segment Editor Support segmentation	1	1349	May 26, 2021
Surface Cut and Fiducial Placement Issue Support segmentation	8	949	November 21, 2019
Mask volume- segment editor Support	11	3945	August 4, 2019

New segment editor effects: Mask volume and Surface cut

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