dipy_correct_biasfield#
Synopsis#
Correct bias field.
Usage#
dipy_correct_biasfield [OPTIONS] input_files
Input Parameters#
input_files
Path to the input volumes. This path may contain wildcards to process multiple inputs at once.
General Options#
--bval
Path to the b-value file. (default: None)
--bvec
Path to the b-vector file. (default: None)
--method
- Bias field correction method. Choose from:
‘n4’: DeepN4 bias field correction. See [1] for more details.
‘b0’: B0 bias field correction via normalization.
‘n4’ method is recommended for T1-weighted images where ‘b0’ method is recommended for diffusion-weighted images. (default: n4)
--threshold
Threshold for cleaning the final correction field in DeepN4 method. (default: 0.5)
--use_cuda
Use CUDA for DeepN4 bias field correction. (default: False)
--verbose
Print verbose output. (default: False)
Output Options#
--out_dir
Output directory. (default: current directory)
--out_corrected
Name of the corrected volume to be saved. (default: biasfield_corrected.nii.gz)
References#
Garyfallidis, E., M. Brett, B. Amirbekian, A. Rokem, S. Van Der Walt, M. Descoteaux, and I. Nimmo-Smith. Dipy, a library for the analysis of diffusion MRI data. Frontiers in Neuroinformatics, 1-18, 2014.