def plot_brainrsa_regions(img,
threshold=None,
background=get_bg_ch2(),
type='r'):
"""
Plot the RSA-result regions by 3 cuts (frontal, axial & lateral)
Parameters
----------
img : string
The file path of the .nii file of the RSA results.
threshold : None or int. Default is None.
The threshold of the number of voxels used in correction.
If threshold=n, only the similarity clusters consisting more than threshold voxels will be visible. If it is
None, the threshold-correction will not work.
background : Niimg-like object or string. Default is stuff.get_bg_ch2()
The background image that the RSA results will be plotted on top of.
type : string 'r' or 't'
The type of result (r-values or t-values).
"""
imgarray = nib.load(img).get_fdata()
if (imgarray == np.nan).all() == True:
print("No Valid Results")
else:
if threshold != None:
imgarray = nib.load(img).get_fdata()
affine = get_affine(img)
imgarray = correct_by_threshold(imgarray, threshold)
img = nib.Nifti1Image(imgarray, affine)
if type == 'r':
plotting.plot_roi(roi_img=img,
bg_img=background,
threshold=0,
vmin=0.1,
vmax=1,
title="Similarity",
resampling_interpolation="continuous")
if type == 't':
plotting.plot_roi(roi_img=img,
bg_img=background,
threshold=0,
vmin=-7,
vmax=7,
title="Similarity",
resampling_interpolation="continuous")
plt.show()
return 0
def test_get_bg_ch2(self):
output = get_bg_ch2()
package_root = os.path.dirname(os.path.abspath(__file__))
self.assertEqual(output,
os.path.join(package_root, 'template/ch2.nii.gz'))