nipype.interfaces.slicer.segmentation.simpleregiongrowingsegmentation module¶
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SimpleRegionGrowingSegmentation¶
Bases: SEMLikeCommandLine
Wrapped executable:
SimpleRegionGrowingSegmentation.title: Simple Region Growing Segmentation
category: Segmentation
description: A simple region growing segmentation algorithm based on intensity statistics. To create a list of fiducials (Seeds) for this algorithm, click on the tool bar icon of an arrow pointing to a starburst fiducial to enter the ‘place a new object mode’ and then use the fiducials module. This module uses the Slicer Command Line Interface (CLI) and the ITK filters CurvatureFlowImageFilter and ConfidenceConnectedImageFilter.
version: 0.1.0.$Revision: 19904 $(alpha)
documentation-url: http://www.slicer.org/slicerWiki/index.php/Documentation/4.1/Modules/SimpleRegionGrowingSegmentation
contributor: Jim Miller (GE)
acknowledgements: This command module was derived from Insight/Examples (copyright) Insight Software Consortium
- Optional Inputs:
args (a string) – Additional parameters to the command. Maps to a command-line argument:
%s.environ (a dictionary with keys which are a bytes or None or a value of class ‘str’ and with values which are a bytes or None or a value of class ‘str’) – Environment variables. (Nipype default value:
{})inputVolume (a pathlike object or string representing an existing file) – Input volume to be filtered. Maps to a command-line argument:
%s(position: -2).iterations (an integer) – Number of iterations of region growing. Maps to a command-line argument:
--iterations %d.labelvalue (an integer) – The integer value (0-255) to use for the segmentation results. This will determine the color of the segmentation that will be generated by the Region growing algorithm. Maps to a command-line argument:
--labelvalue %d.multiplier (a float) – Number of standard deviations to include in intensity model. Maps to a command-line argument:
--multiplier %f.neighborhood (an integer) – The radius of the neighborhood over which to calculate intensity model. Maps to a command-line argument:
--neighborhood %d.outputVolume (a boolean or a pathlike object or string representing a file) – Output filtered. Maps to a command-line argument:
%s(position: -1).seed (a list of items which are a list of from 3 to 3 items which are a float) – Seed point(s) for region growing. Maps to a command-line argument:
--seed %s....smoothingIterations (an integer) – Number of smoothing iterations. Maps to a command-line argument:
--smoothingIterations %d.timestep (a float) – Timestep for curvature flow. Maps to a command-line argument:
--timestep %f.- Outputs:
outputVolume (a pathlike object or string representing an existing file) – Output filtered.