SlicerExtension-VMTK - VesselnessFiltering - Code

marie · November 26, 2019, 8:26pm

Hey there!

I would like to understand how VesselnessFiltering is working in general. So, I’m looking at:

vmtk/SlicerExtension-VMTK/blob/master/VesselnessFiltering/VesselnessFiltering.py

# slicer imports
import os
import unittest
import vtk, qt, ctk, slicer
from slicer.ScriptedLoadableModule import *
import logging

#
# Vesselness Filtering using VMTK based Tools
#

class VesselnessFiltering(ScriptedLoadableModule):
  """Uses ScriptedLoadableModule base class, available at:
  https://github.com/Slicer/Slicer/blob/master/Base/Python/slicer/ScriptedLoadableModule.py
  """

  def __init__(self, parent):
    ScriptedLoadableModule.__init__(self, parent)
    self.parent.title = "Vesselness Filtering"
    self.parent.categories = ["Vascular Modeling Toolkit"]

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I see how the internal parameters are generated from the inputInformation and the inputImage, but I still don’t know that much about the vtkvmtkSegmentationPython module. I found this page: http://www.vmtk.org/doc/html/classvtkvmtkVesselnessMeasureImageFilter.html#details and I have been looking for a more detailed vtk manual…

anyway, I still don’t understand what kind of parameters all those vtk-methods expect (apart from type) and what they are needed for. I would like to understand why the internal parameters (diameter, alpha, beta,…) are calculated like that. Is there something like a detailed example or an user documentation?

Thanks for your help!

lassoan · November 26, 2019, 8:39pm

Yes, this exactly the main problem with VMTK: there is nearly zero API documentation. You can ask about the parameters on the VMTK mailing list then write what you learn to documentation of the corresponding class in VMTK (they accept pull requests).

marie · November 26, 2019, 8:47pm

Okay, thanks! I will try… let’s see what I can figure out

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SlicerExtension-VMTK - VesselnessFiltering - Code

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