Extract the peaks of a spherical harmonic function in each voxel
sh2peaks [ options ] SH output
- SH: the input image of SH coefficients.
- output: the output image. Each volume corresponds to the x, y & z component of each peak direction vector in turn.
Peaks of the spherical harmonic function in each voxel are located by commencing a Newton search along each of a set of pre-specified directions
The spherical harmonic coefficients are stored according the conventions described the main documentation, which can be found at the following link: https://mrtrix.readthedocs.io/en/3.0_RC3/concepts/spherical_harmonics.html
- -num peaks the number of peaks to extract (default: 3).
- -direction phi theta (multiple uses permitted) the direction of a peak to estimate. The algorithm will attempt to find the same number of peaks as have been specified using this option.
- -peaks image the program will try to find the peaks that most closely match those in the image provided.
- -threshold value only peak amplitudes greater than the threshold will be considered.
- -seeds file specify a set of directions from which to start the multiple restarts of the optimisation (by default, the built-in 60 direction set is used)
- -mask image only perform computation within the specified binary brain mask image.
- -fast use lookup table to compute associated Legendre polynomials (faster, but approximate).
- -info display information messages.
- -quiet do not display information messages or progress status; alternatively, this can be achieved by setting the MRTRIX_QUIET environment variable to a non-empty string.
- -debug display debugging messages.
- -force force overwrite of output files (caution: using the same file as input and output might cause unexpected behaviour).
- -nthreads number use this number of threads in multi-threaded applications (set to 0 to disable multi-threading).
- -config key value (multiple uses permitted) temporarily set the value of an MRtrix config file entry.
- -help display this information page and exit.
- -version display version information and exit.
Jeurissen, B.; Leemans, A.; Tournier, J.-D.; Jones, D.K.; Sijbers, J. Investigating the prevalence of complex fiber configurations in white matter tissue with diffusion magnetic resonance imaging. Human Brain Mapping, 2013, 34(11), 2747-2766
Author: J-Donald Tournier (email@example.com)
Copyright: Copyright (c) 2008-2019 the MRtrix3 contributors.
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