[–out_warp_transform str] [–out_warp_kernel str] [–out_dist str] [–out_matched_pairs str]
static_file moving_file BundleWarp: streamline-based nonlinear registration. BundleWarp is nonrigid registration method for deformable registration of white matter tracts. static_file Path to the static (reference) .trk file.
moving_file Path to the moving (target to be registered) .trk file. show this help message and exit Path to the precalculated distance matrix file. Represents the trade-off between regularizing the deformation and having points match very closely. Lower value of alpha means high deformations. It is represented with λ in BundleWarp paper. NOTE: setting alpha<=0.01 will result in highly deformable registration that could extremely modify the original anatomy of the moving bundle. (default 0.3) Represents the strength of the interaction between points Gaussian kernel size. (default 20) Maximum number of iterations for deformation process in ml-CPD method. (default 15) If False, use rigid registration as starting point. (default True) Output directory. (default current directory) Filename of linearly moved bundle. Filename of nonlinearly moved (warped) bundle. Filename of warp transformations generated by BundleWarp. Filename of regularization gaussian kernel generated by BundleWarp. Filename of MDF distance matrix. Filename of matched pairs; treamline correspondences between two bundles. Chandio et al. “BundleWarp, streamline-based nonlinear registration of white matter tracts.” bioRxiv (2023): 2023-01. 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.dipy_bundlewarp
Usage
Positional Arguments
Optional Arguments
Output Arguments(Optional)
References