Slicer Density Lung Segmentation

PaoloZaffino · March 29, 2022, 3:59pm

Dear all,
I would like to inform you that Slicer has a new extension: Slicer Density Lung Segmentation.
In this extension, we provide a tool to classify lung tissue density on CT images.
Its first use is for images of patients diagnosed with pneumonia (such as COVID19), where the algorithm is able to label voxels as “air”, “healthy parenchyma”, “ground glass”, “consolidation” and “thick tissue”.
A couple of clicks are sufficient to automatically get such a piece of precious information…give it a shot!
The rationale behind this extension, as well as a link to a free COVID-19 CT dataset, can be found here.

Do not hesitate to ask for further information or to improve the code (feedback are always welcomed)!

xackey · April 7, 2023, 5:03am

Excellent extension!
I want to operate this extension with python interactor.
Could you tell me how to write python code?

lassoan · April 11, 2023, 4:59am

See how it is used in Python scripts in the module’s GUI:

github.com

pzaffino/SlicerDensityLungSegmentation/blob/cd207ded376cdac2e8bc9c3850fe3cac55024887/LungCTGMMSegmentation/LungCTGMMSegmentation.py#L136


      
              self.onSelect()
          
          
    # Create logic object
              self.logic = LungCTGMMSegmentationLogic()
          
          
  def onSelect(self):
              self.applyButton.enabled = self.CTSelector.currentNode() and self.outputSelector.currentNode() and self.averagedOutputSelector.currentNode()
          
          

          
  def onApplyButton(self):
              self.logic.run(self.CTSelector.currentNode(), self.outputSelector.currentNode(), self.averagedOutputSelector.currentNode())
          #
          # LungCTGMMSegmentationLogic
          #
          
          
class LungCTGMMSegmentationLogic(ScriptedLoadableModuleLogic):
            """This class should implement all the actual
            computation done by your module.  The interface
            should be such that other python code can import
            this class and make use of the functionality without
            requiring an instance of the Widget.

Daniel_Lo · September 24, 2024, 12:28am

Hi, i have tried this, my system is macos, in this case, i have large green area, which was labeled as label_2, can you help me to understand this part ?

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Slicer Density Lung Segmentation

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