Operating system:Windows 10
Slicer version:4.11
Desired effect: The mask function in mimics is adjusted according to the threshold.
It is very hard to compare these two images since one is a 3D model and the other is 2D of mask. But from what you have described, this should be available to you through the Editable intensity ranges of Mask tab in whatever effect you are using.
Also, please use a more recent version of Slicer to try these. 4.11 has been discontinued for 3-4 years now.
Please look at the following three pictures, where the yellow is the segmented blood vessels, mimics can automatically adapt to the surrounding threshold after importing the label. Fill the blood vessels in red. I want to implement something similar in slicer. What you call adjusting the mask threshold does not achieve the function of changing the mask size
I am not familiar with Mimics, never used the program. What you are describing sounds like smoothing possibly with some dilation to me (not sure adapting the surrounding threshold mean). Both of these are available in Slicer.
If the combination of smoothing and dilation does not cover what you are seeking, my suggestion is to create a short a video capture of what you are doing Mimics for us to understand what’s missing.
If you want to apply corrections that cannot be represented at the segmentation’s resolution (which is set to the source image’s resolution by default) then you can resample the segmentation to have finer resolution. Increase the segmentation resolution before the dilation that @muratmaga described above.
We are working on fully automatic lung vessel segmentation with @rbumm and @diazandr3s. Probably we’ll have improved results in a couple of months, so check for updates in MONAIAuto3DSeg and LungCTAnalyzer extensions. If the automatic segmentation quality is good then should be no need for post-processing.
