Reading an inverse operator#

The inverse operator’s source space is shown in 3D.

# Author: Alexandre Gramfort <alexandre.gramfort@inria.fr>
#
# License: BSD-3-Clause
# Copyright the MNE-Python contributors.
import mne
from mne.datasets import sample
from mne.minimum_norm import read_inverse_operator
from mne.viz import set_3d_view

print(__doc__)

data_path = sample.data_path()
subjects_dir = data_path / "subjects"
meg_path = data_path / "MEG" / "sample"
fname_trans = meg_path / "sample_audvis_raw-trans.fif"
inv_fname = meg_path / "sample_audvis-meg-oct-6-meg-inv.fif"

inv = read_inverse_operator(inv_fname)

print(f"Method: {inv['methods']}")
print(f"fMRI prior: {inv['fmri_prior']}")
print(f"Number of sources: {inv['nsource']}")
print(f"Number of channels: {inv['nchan']}")

src = inv["src"]  # get the source space

# Get access to the triangulation of the cortex

print(f"Number of vertices on the left hemisphere:  {len(src[0]['rr'])}")
print(f"Number of triangles on left hemisphere:     {len(src[0]['use_tris'])}")
print(f"Number of vertices on the right hemisphere: {len(src[1]['rr'])}")
print(f"Number of triangles on right hemisphere:    {len(src[1]['use_tris'])}")
Reading inverse operator decomposition from /home/circleci/mne_data/MNE-sample-data/MEG/sample/sample_audvis-meg-oct-6-meg-inv.fif...
    Reading inverse operator info...
    [done]
    Reading inverse operator decomposition...
    [done]
    305 x 305 full covariance (kind = 1) found.
    Read a total of 4 projection items:
        PCA-v1 (1 x 102) active
        PCA-v2 (1 x 102) active
        PCA-v3 (1 x 102) active
        Average EEG reference (1 x 60) active
    Noise covariance matrix read.
    22494 x 22494 diagonal covariance (kind = 2) found.
    Source covariance matrix read.
    22494 x 22494 diagonal covariance (kind = 6) found.
    Orientation priors read.
    22494 x 22494 diagonal covariance (kind = 5) found.
    Depth priors read.
    Did not find the desired covariance matrix (kind = 3)
    Reading a source space...
    Computing patch statistics...
    Patch information added...
    Distance information added...
    [done]
    Reading a source space...
    Computing patch statistics...
    Patch information added...
    Distance information added...
    [done]
    2 source spaces read
    Read a total of 4 projection items:
        PCA-v1 (1 x 102) active
        PCA-v2 (1 x 102) active
        PCA-v3 (1 x 102) active
        Average EEG reference (1 x 60) active
    Source spaces transformed to the inverse solution coordinate frame
Method: 1
fMRI prior: None
Number of sources: 7498
Number of channels: 305
Number of vertices on the left hemisphere:  155407
Number of triangles on left hemisphere:     8192
Number of vertices on the right hemisphere: 156866
Number of triangles on right hemisphere:    8192

Show the 3D source space

fig = mne.viz.plot_alignment(
    subject="sample",
    subjects_dir=subjects_dir,
    trans=fname_trans,
    surfaces="white",
    src=src,
)
set_3d_view(fig, focalpoint=(0.0, 0.0, 0.06))
read inverse

Total running time of the script: (0 minutes 4.199 seconds)

Estimated memory usage: 24 MB

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