Home · Quickstart · Documentation · Citation · NiPy

# interfaces.slicer.registration.brainsresample

## BRAINSResample

Link to code

Wraps command **/home/raid3/gorgolewski/software/slicer/Slicer –launch BRAINSResample **

title: Resample Image (BRAINS)

category: Registration

description:
  This program resamples an image image using a deformation field or a transform (BSpline, Affine, Rigid, etc.).

version: 3.0.0

documentation-url: http://www.slicer.org/slicerWiki/index.php/Modules:BRAINSResample

license: https://www.nitrc.org/svn/brains/BuildScripts/trunk/License.txt

contributor: This tool was developed by Vincent Magnotta, Greg Harris, and Hans Johnson.

acknowledgements: The development of this tool was supported by funding from grants NS050568 and NS40068 from the National Institute of Neurological Disorders and Stroke and grants MH31593, MH40856, from the National Institute of Mental Health.

Inputs:

    [Mandatory]

    [Optional]
    args: (a string)
            Additional parameters to the command
    defaultValue: (a float)
            Default voxel value
    deformationVolume: (an existing file name)
            Displacement Field to be used to warp the image
    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
    gridSpacing: (an integer)
            Add warped grid to output image to help show the deformation that occured with specified
            spacing.   A spacing of 0 in a dimension indicates that grid lines should be rendered to
            fall exactly (i.e. do not allow displacements off that plane).  This is useful for
            makeing a 2D image of grid lines from the 3D space
    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)
            Image To Warp
    interpolationMode: ('NearestNeighbor' or 'Linear' or 'ResampleInPlace' or 'BSpline' or
             'WindowedSinc' or 'Hamming' or 'Cosine' or 'Welch' or 'Lanczos' or 'Blackman')
            Type of interpolation to be used when applying transform to moving volume.  Options are
            Linear, ResampleInPlace, NearestNeighbor, BSpline, or WindowedSinc
    inverseTransform: (a boolean)
            True/False is to compute inverse of given transformation. Default is false
    numberOfThreads: (an integer)
            Explicitly specify the maximum number of threads to use.
    outputVolume: (a boolean or a file name)
            Resulting deformed image
    pixelType: ('float' or 'short' or 'ushort' or 'int' or 'uint' or 'uchar' or 'binary')
            Specifies the pixel type for the input/output images.  The 'binary' pixel type uses a
            modified algorithm whereby the image is read in as unsigned char, a signed distance map
            is created, signed distance map is resampled, and then a thresholded image of type
            unsigned char is written to disk.
    referenceVolume: (an existing file name)
            Reference image used only to define the output space. If not specified, the warping is
            done in the same space as the image to warp.
    warpTransform: (an existing file name)
            Filename for the BRAINSFit transform used in place of the deformation field

Outputs:

    outputVolume: (an existing file name)
            Resulting deformed image