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