Commands and scripts

The MRtrix3 software package includes a suite of tools for image analysis and visualisation. With the exception of mrview and shview, all MRtrix3 executables are designed to be run via a terminal using a consistent command-line interface. While many of the tools and features are discussed within tutorials found in this documentation, a comprehensive List of MRtrix3 commands and List of MRtrix3 scripts can be found in the reference section. These lists provide links to the help page (manual) for each executable, which can also be accessed by typing the -help option after the executable name on the terminal.