Read and visualize projections (SSP and other)

This example shows how to read and visualize Signal Subspace Projectors (SSP) vector. Such projections are sometimes referred to as PCA projections.

# Author: Joan Massich <mailsik@gmail.com>
#
# License: BSD (3-clause)

import matplotlib.pyplot as plt

import mne
from mne import read_proj
from mne.io import read_raw_fif

from mne.datasets import sample

print(__doc__)

data_path = sample.data_path()

subjects_dir = data_path + '/subjects'
fname = data_path + '/MEG/sample/sample_audvis_raw.fif'
ecg_fname = data_path + '/MEG/sample/sample_audvis_ecg-proj.fif'

Load the FIF file and display the projections present in the file. Here the projections are added to the file during the acquisition and are obtained from empty room recordings.

raw = read_raw_fif(fname)
empty_room_proj = raw.info['projs']

# Display the projections stored in `info['projs']` from the raw object
raw.plot_projs_topomap()
../../_images/sphx_glr_plot_read_proj_001.png

Out:

Opening raw data file /home/circleci/mne_data/MNE-sample-data/MEG/sample/sample_audvis_raw.fif...
    Read a total of 3 projection items:
        PCA-v1 (1 x 102)  idle
        PCA-v2 (1 x 102)  idle
        PCA-v3 (1 x 102)  idle
    Range : 25800 ... 192599 =     42.956 ...   320.670 secs
Ready.
Current compensation grade : 0

Display the projections one by one

n_cols = len(empty_room_proj)
fig, axes = plt.subplots(1, n_cols, figsize=(2 * n_cols, 2))
for proj, ax in zip(empty_room_proj, axes):
    proj.plot_topomap(axes=ax, info=raw.info)
../../_images/sphx_glr_plot_read_proj_002.png

Use the function in mne.viz to display a list of projections

../../_images/sphx_glr_plot_read_proj_003.png

The ECG projections can be loaded from a file and added to the raw object

# read the projections
ecg_projs = read_proj(ecg_fname)

# add them to raw and plot everything
raw.add_proj(ecg_projs)
raw.plot_projs_topomap()
../../_images/sphx_glr_plot_read_proj_004.png

Out:

    Read a total of 6 projection items:
        ECG-planar-999--0.200-0.400-PCA-01 (1 x 203)  idle
        ECG-planar-999--0.200-0.400-PCA-02 (1 x 203)  idle
        ECG-axial-999--0.200-0.400-PCA-01 (1 x 102)  idle
        ECG-axial-999--0.200-0.400-PCA-02 (1 x 102)  idle
        ECG-eeg-999--0.200-0.400-PCA-01 (1 x 59)  idle
        ECG-eeg-999--0.200-0.400-PCA-02 (1 x 59)  idle
6 projection items deactivated

Total running time of the script: ( 0 minutes 2.708 seconds)

Estimated memory usage: 9 MB

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