interfaces.slicer.segmentation.simpleregiongrowingsegmentation

SimpleRegionGrowingSegmentation

Link to code

Wraps command **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

Inputs:

[Mandatory]

[Optional]
args: (a string)
        Additional parameters to the command
        flag: %s
environ: (a dictionary with keys which are a value of type 'str' and
         with values which are a value of type 'str', nipype default value:
         {})
        Environment variables
ignore_exception: (a boolean, nipype default value: False)
        Print an error message instead of throwing an exception in case the
        interface fails to run
inputVolume: (an existing file name)
        Input volume to be filtered
        flag: %s, position: -2
iterations: (an integer (int or long))
        Number of iterations of region growing
        flag: --iterations %d
labelvalue: (an integer (int or long))
        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
        flag: --labelvalue %d
multiplier: (a float)
        Number of standard deviations to include in intensity model
        flag: --multiplier %f
neighborhood: (an integer (int or long))
        The radius of the neighborhood over which to calculate intensity
        model
        flag: --neighborhood %d
outputVolume: (a boolean or a file name)
        Output filtered
        flag: %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
        flag: --seed %s...
smoothingIterations: (an integer (int or long))
        Number of smoothing iterations
        flag: --smoothingIterations %d
terminal_output: ('stream' or 'allatonce' or 'file' or 'none')
        Control terminal output: `stream` - displays to terminal immediately
        (default), `allatonce` - waits till command is finished to display
        output, `file` - writes output to file, `none` - output is ignored
timestep: (a float)
        Timestep for curvature flow
        flag: --timestep %f

Outputs:

outputVolume: (an existing file name)
        Output filtered