Command line usage

Once the installation is successful, options for the corresponding usecase could be obtained by typing the corresponding command, or by adding -h flag to it:

• visualqc_alignment
• visualqc_freesurfer
• visualqc_func_mri
• visualqc_anatomical
• visualqc_defacing
• visualqc_diffusion

Each of them has a shorter name shortcut too to save a bit of typing :):

• vqcalign
• vqcfs
• vqcfunc
• vqcanat
• vqcdeface
• vqcdwi

For example,

vqcalign
vqcfunc -h

Those options for each command are shown in their respective pages:

• Command line usage - Alignment
• Command line usage - Freesurfer
• Command line usage - Functional MRI
• Command line usage - Defacing
• Command line usage - T1w MRI
• Command line usage - Diffusion MRI

Check the bottom of this page for examples.

Examples showing the usage of each of these use cases are shown below:

• Example usage - Freesurfer
• Example usage - Segmentation
• Example usage - Functional MRI
• Example usage - Defacing
• Example usage - Alignment
• Example usage - T1w MRI
• Example usage - Diffusion MRI