Brain Plots

Installation

• git clone [[ repository ]] && cd [[ repository ]]
• python setup.py install

Additional requirements

• X11
• VTK
  • Easiest way to get this is conda install vtk
• Conte69 Atlas
• HCP500 Resting Atlas

Arguments [defaults in bold]

• in_stat, path of statistic to map
• -o: outfile, in_stat.png
• -c: path to Conte69 atlas, working directory
• -r: path to HCP 500 resting atlas
• -t: set threshold; 2.3
• -s: set image size; 1-smallest, 5-largest, 2
• -v: view of the brain: lat, sup, or inf
• -i: inflation level of generated brain mesh: low, medium, or high
• -w: run windowed, false

Sample Use

>$ brainplot /samples/faces_gt_objects.nii

>$ brainplot /samples/faces_gt_objects.nii -v inf

TODO

:)