StrokeSegLab.preprocessing.brain_extraction.BrainExtracter Class Reference

Public Member Functions
None	__init__ (self, AnimaWrapper wrapper, str atlasImage, gui=None)
str	run (self, str img_path, str prefix)

Public Attributes
	wrapper = wrapper
	atlasImage = atlasImage
	iccImage = os.path.join(ATLAS_DIR,"BrainMask.nrrd")
list	pyramid_option = ["-p", "4", "-l", "1"]
	gui = gui

Detailed Description

This class handle the brain extraction during the preprocessing

Constructor & Destructor Documentation

__init__()

None StrokeSegLab.preprocessing.brain_extraction.BrainExtracter.__init__	(		self,
		AnimaWrapper	wrapper,
		str	atlasImage,
			gui = None )

Initialize the brain extracter class

Args:
    wrapper (AnimaWrapper): a wrapper to simplify the use of anima executables
    atlasImage (str): _description_
    gui (GUIMain, optional): _description_. Defaults to None.

Member Function Documentation

run()

str StrokeSegLab.preprocessing.brain_extraction.BrainExtracter.run	(		self,
		str	img_path,
		str	prefix )

Performs the brain extraction on 3D image. Composed by a sequence of anima commands. Store all intermediate results in the temporary directory

Args:
    img_path (str): Input path
    prefix (str): Composed of the temporary folder path and the input file’s base name without its extension

Returns:
    str: The output, the brain extracted image

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The documentation for this class was generated from the following file:

• /home/ymahe/Desktop/StrokeSeg/StrokeSegLab/preprocessing/brain_extraction.py