vmtklevelsetsegmentation automatic

[Jessica Williams]

Is it possible to run vmtklevelsetsegmentation and specify the segmentation type (e.g. colliding fronts) and a seed point in the command line to batch process segmentations without any user input?

[Andras Lasso]

vmtklevelsetsegmentaiton is just a wrapper over a few VMTK filters. You can see what exactly it can do by having a look at its source code:

https://github.com/vmtk/vmtk/blob/master/vmtkScripts/vmtklevelsetsegmentation.py

In VMTK scripts, the only use of colliding fronts is to initialize a level set:

https://github.com/vmtk/vmtk/blob/master/vmtkScripts/vmtkimageinitialization.py

Can you post a screenshot of your input image and the segmentations that you managed to get so far?

Andras

[Jessica Williams]

I have an algorithm to automatically detect four seed points in the aorta (one at the bottom of the descending aorta, one at the end of the ascending aorta, and ascending and descending in a middle slice). It seems that vmtklevelsetsegmentation colliding fronts does a good job of connecting these seed points together (I do it by initialising three different branches and connecting them together - see pictures). If I have the coordinates of these four seed points, is there a good way for me to run the segmentation via the command line?