Smooth brick¶

3D Gaussian smoothing of image volumes¶

Mandatory nputs parameters:

in_file
An image to be smoothed. An item that is an existing, uncompressed file (valid extensions: [.img, .nii, .hdr]).
ex. ['/home/username/data/raw_data/Func.nii']

Optional inputs with default value parameters:

fwhm (a float, optional, default value is 6.0)
Specify the full-width at half maximum of the Gaussian smoothing kernel in mm (not voxels). Will be converted internally to sigma in mm (not voxels), using approximately 2.355 * sigma = fwhm. Mutually exclusive with sigma.
ex. 6.0
out_prefix (a string, optional, default value is ‘s’)
Specify the string to be prepended to the filename of the smoothed image file.
ex. 's_'
output_type (‘NIFTI’ or ‘NIFTI_GZ’, optional, default value is NIFTI)
Format of the output image (one of NIFTI, NIFTI_GZ).

- NIFTI: *.nii

- NIFTI_GZ: *.nii.gz
ex. NIFTI

Optional inputs parameters:

sigma (a float, optional)
Specify the standard deviation of the filter in mm (not voxels). Mutually exclusive with fwhm.
ex. 2.55

Outputs parameters:

out_file (a pathlike object or string representing a file)
Smoothed file.
ex. '/home/username/data/derived_data/s_Func.nii'

Useful links: