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"""
=======================
Display fMRI Activation
=======================
The most straightforward way to plot activations is when you already have
a map of them defined on the Freesurfer surface. This map can be stored in any
file format that Nibabel can understand.
"""
from surfer import Brain
print(__doc__)
"""
Bring up the visualization window.
"""
brain = Brain("fsaverage", "lh", "inflated")
"""
Get a path to the overlay file.
"""
overlay_file = "example_data/lh.sig.nii.gz"
"""
Display the overlay on the surface using the defaults to control thresholding
and colorbar saturation. These can be set through your config file.
"""
brain.add_overlay(overlay_file)
"""
You can then turn the overlay off.
"""
brain.overlays["sig"].remove()
"""
Now add the overlay again, but this time with set threshold and showing only
the positive activations.
"""
brain.add_overlay(overlay_file, min=5, max=20, sign="pos")
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