MRtrix provides a set of tools to perform diffusion-weighted MRI white matter tractography in the presence of crossing fibres, using Constrained Spherical Deconvolution (Tournier et al.. 2004; Tournier et al. 2007), and a probabilisitic streamlines algorithm (Tournier et al., 2012). These applications have been written from scratch in C++, using the functionality provided by Eigen, and Qt. The software is currently capable of handling DICOM, NIfTI and AnalyseAVW image formats, amongst others. The source code is distributed under the Mozilla Public License.
.. toctree:: :maxdepth: 1 :caption: Install installation/before_install installation/linux_install installation/mac_install installation/windows_install installation/hpc_clusters_install
.. toctree:: :maxdepth: 1 :caption: Getting started getting_started/key_features getting_started/config getting_started/image_data getting_started/command_line getting_started/troubleshooting
.. toctree:: :maxdepth: 1 :caption: Tutorials tutorials/basic_dwi_processing tutorials/denoising tutorials/hcp_connectome tutorials/connectome_tool tutorials/labelconvert tutorials/advanced_debugging tutorials/warping_images_with_warps_from_other_packages tutorials/FAQ
.. toctree:: :maxdepth: 1 :caption: Workflows workflows/DWI_preprocessing_for_quantitative_analysis workflows/fixel_based_analysis workflows/act workflows/sift workflows/structural_connectome workflows/global_tractography workflows/multi_tissue_csd
.. toctree:: :maxdepth: 1 :caption: Concepts concepts/dw_scheme concepts/orthonormal_basis concepts/dixels_fixels concepts/afd_connectivity concepts/response_function_estimation
.. toctree:: :maxdepth: 1 :caption: Reference reference/commands_list reference/scripts_list reference/config_file_options reference/mrtrix2_equivalent_commands