RTP-preproc

Reproducible Tract Profiles - preprocessing.

This gear takes diffusion images, bvec and bval files, and optionally a T1 and preprocess them. The output of this gear is prepared to go to RTP-pipeline.

This gear is an adaptation from mrTrix's (https://github.com/MRtrix3/mrtrix3) recommended preprocessing procedure implemented in Brainlife (https://brainlife.io/app/5a813e52dc4031003b8b36f9)

TO-DO:

1. Document different preprocessing options.
2. Include other vistalab tools in the same gear to have a complete set of solutions in the same gear. Right now it is required to launch them separately.
   1. dwi-bvec-flip-detect
   2. dwi-flip-bvec
   3. dwi-acpc-anat-normalize

For most of the cases, the steps will be:

1. Run RTP-preproc: select the option to align dwi data with anatomy
2. Run dwi-bvec-flip-detect: if the bvec is flipped, it will detect it and flip it automatically.
3. Run RTP-pipeline