Tutorial

Javier Garcia Blas edited this page Jun 8, 2017 · 2 revisions

pHARDI tutorial

This tutorial shows how to use the pHARDI toolik, using the example dataset distributed https://doi.org/10.5281/zenodo.258764.

Download data for this tutorial

Download the original data (4 files) from here:

mkdir data
cd data
wget https://zenodo.org/record/258764/files/bvals\\
wget https://zenodo.org/record/258764/files/bvecs\\
wget https://zenodo.org/record/258764/files/data.nii\\
wget https://zenodo.org/record/258764/files/nodif_brain_mask.nii

Download and compile pHARDI

% Download You can get pHARDI from the GITHUB repository:

git clone https://github.com/arcosuc3m/phardi.git

% Compile

cd phardi
mkdir build
cmake ..
make -j4

Execution

./phardi -a rumba -k ../../data/data.nii.gz -m ../../data/nodif_brain_mask.nii.gz -r ../../data/bvecs -b ../../data/bvals --odf ../../data/