Build context for a Flywheel compatible Gear for the HDFT Subsampled Recon algorithm from Schneider Lab, University of Pittsburgh.
This sample code computes a transformation of multi-shell diffusion weighted data to a set of Spherical Harmonic coefficients. Outputs 4D Spherical Harmonic coefficient data. This is a first step in the Schneider Lab HDFT diffusion reconstruction process.
dwi_filename: input filename of 4D DWI data
subsampling_vec: input vector to select volumes from
dwi_filename(can be a text file or CSV)
bvals_filename: input file of Nx1 b values
bvecs_filename: input file of Nx3 b vectors
spherical_harmonics_order: The maximum order of spherical harmonics. Defaulted to
mean_diffusion_length: The mean diffusion length for reconstruction of GQI matrix. Defaulted to
sh_filename: 4D Spherical Harmonic coefficient data.
Pathak, S. K., Fissell, C., Krishnaswamy, D., Aggarwal, S., Hachey, R., Schneider, W. (2015).
Diffusion reconstruction by combining spherical harmonics and generalized q-sampling imaging.
ISMRM, Toronto, Canada.
All code is copyright University of Pittsburgh unless alternate authorship noted.
This code is not for public distribution, please contact Schneider Lab re distribution.