Examples Gallery¶

Contents

Introductory Examples
Connectivity Analysis Examples
Examples on open datasets
Decoding / MVPA
Forward modeling
Inverse problem and source analysis
Input/Ouput
Preprocessing
Real-time M/EEG Acquisition
Data Simulation
Statistics Examples
Time-Frequency Examples
Visualization

Introductory Examples ¶

../_images/sphx_glr_plot_compute_mne_inverse_thumb.png

Compute MNE-dSPM inverse solution on evoked data

../_images/sphx_glr_plot_extract_events_from_raw_thumb.png

Find events in a raw file

../_images/sphx_glr_plot_from_raw_to_epochs_to_evoked_thumb.png

Extract epochs, average and save evoked response to disk

Connectivity Analysis Examples ¶

Examples demonstrating connectivity analysis in sensor and source space.

../_images/sphx_glr_plot_cwt_sensor_connectivity_thumb.png

Compute seed based time-frequency connectivity in sensor space

../_images/sphx_glr_plot_mne_inverse_coherence_epochs_thumb.png

Compute coherence in source space using a MNE inverse solution

../_images/sphx_glr_plot_mne_inverse_connectivity_spectrum_thumb.png

Compute full spectrum source space connectivity between labels

../_images/sphx_glr_plot_mne_inverse_label_connectivity_thumb.png

Compute source space connectivity and visualize it using a circular graph

../_images/sphx_glr_plot_mne_inverse_psi_visual_thumb.png

Compute Phase Slope Index (PSI) in source space for a visual stimulus

../_images/sphx_glr_plot_sensor_connectivity_thumb.png

Compute all-to-all connectivity in sensor space

Examples on open datasets ¶

Some demos on common/public datasets using MNE.

../_images/sphx_glr_plot_brainstorm_data_thumb.png

Brainstorm tutorial datasets

../_images/sphx_glr_plot_megsim_data_thumb.png

MEGSIM experimental and simulation datasets

../_images/sphx_glr_plot_megsim_data_single_trial_thumb.png

MEGSIM single trial simulation dataset

../_images/sphx_glr_plot_spm_faces_dataset_thumb.png

From raw data to dSPM on SPM Faces dataset

Decoding / MVPA ¶

Decoding, a.k.a. MVPA or machine learning examples.

../_images/sphx_glr_plot_decoding_csp_eeg_thumb.png

Motor imagery decoding from EEG data using the Common Spatial Pattern (CSP)

../_images/sphx_glr_plot_decoding_csp_space_thumb.png

Decoding in sensor space data using the Common Spatial Pattern (CSP)

../_images/sphx_glr_plot_decoding_sensors_thumb.png

Decoding sensor space data

../_images/sphx_glr_plot_decoding_spatio_temporal_source_thumb.png

Decoding source space data

../_images/sphx_glr_plot_decoding_time_generalization_thumb.png

Decoding sensor space data with Generalization Across Time

../_images/sphx_glr_plot_decoding_time_generalization_conditions_thumb.png

Decoding sensor space data with generalization across time and conditions

../_images/sphx_glr_plot_decoding_xdawn_eeg_thumb.png

XDAWN Decoding From EEG data

../_images/sphx_glr_plot_ems_filtering_thumb.png

Compute effect-matched-spatial filtering (EMS)

../_images/sphx_glr_plot_linear_model_patterns_thumb.png

Linear classifier on sensor data with plot patterns and filters

Forward modeling ¶

From BEM segmentation, coregistration, setting up source spaces to actual computation of forward solution.

../_images/sphx_glr_plot_bem_contour_mri_thumb.png

Plotting BEM Contours

../_images/sphx_glr_plot_coregistration_transform_thumb.png

Plotting head in helmet from a trans file

../_images/sphx_glr_plot_decimate_head_surface_thumb.png

Decimating scalp surface

../_images/sphx_glr_plot_left_cerebellum_volume_source_thumb.png

Generate a left cerebellum volume source space

../_images/sphx_glr_plot_make_forward_thumb.png

Create a forward operator and display sensitivity maps

../_images/sphx_glr_plot_read_bem_surfaces_thumb.png

Reading BEM surfaces from a forward solution

../_images/sphx_glr_plot_read_forward_thumb.png

Read a forward operator and display sensitivity maps

../_images/sphx_glr_plot_source_space_morphing_thumb.png

Use source space morphing

Inverse problem and source analysis ¶

Estimate source activations, extract activations in labels, morph data between subjects etc.

../_images/sphx_glr_plot_compute_mne_inverse_epochs_in_label_thumb.png

Compute MNE-dSPM inverse solution on single epochs

../_images/sphx_glr_plot_compute_mne_inverse_raw_in_label_thumb.png

Compute sLORETA inverse solution on raw data

../_images/sphx_glr_plot_compute_mne_inverse_volume_thumb.png

Compute MNE-dSPM inverse solution on evoked data in volume source space

../_images/sphx_glr_plot_covariance_whitening_dspm_thumb.png

Demonstrate impact of whitening on source estimates

../_images/sphx_glr_plot_dics_beamformer_thumb.png

Compute DICS beamfomer on evoked data

../_images/sphx_glr_plot_dics_source_power_thumb.png

Compute source power using DICS beamfomer

../_images/sphx_glr_plot_dipole_fit_thumb.png

Do a dipole fit

../_images/sphx_glr_plot_gamma_map_inverse_thumb.png

Compute a sparse inverse solution using the Gamma-Map empirical Bayesian method

../_images/sphx_glr_plot_label_activation_from_stc_thumb.png

Extracting time course from source_estimate object

../_images/sphx_glr_plot_label_from_stc_thumb.png

Generate a functional label from source estimates

../_images/sphx_glr_plot_label_source_activations_thumb.png

Extracting the time series of activations in a label

../_images/sphx_glr_plot_lcmv_beamformer_thumb.png

Compute LCMV beamformer on evoked data

../_images/sphx_glr_plot_lcmv_beamformer_volume_thumb.png

Compute LCMV inverse solution on evoked data in volume source space

../_images/sphx_glr_plot_make_inverse_operator_thumb.png

Assemble inverse operator and compute MNE-dSPM inverse solution

../_images/sphx_glr_plot_mixed_norm_inverse_thumb.png

Compute sparse inverse solution with mixed norm: MxNE and irMxNE

../_images/sphx_glr_plot_mne_crosstalk_function_thumb.png

Compute cross-talk functions (CTFs) for labels for MNE/dSPM/sLORETA

../_images/sphx_glr_plot_mne_point_spread_function_thumb.png

Compute point-spread functions (PSFs) for MNE/dSPM/sLORETA

../_images/sphx_glr_plot_morph_data_thumb.png

Morph source estimates from one subject to another subject

../_images/sphx_glr_plot_rap_music_thumb.png

Compute Rap-Music on evoked data

../_images/sphx_glr_plot_read_inverse_thumb.png

Reading an inverse operator

../_images/sphx_glr_plot_read_source_space_thumb.png

Reading a source space from a forward operator

../_images/sphx_glr_plot_read_stc_thumb.png

Reading an STC file

../_images/sphx_glr_plot_snr_estimate_thumb.png

Plot an estimate of data SNR

../_images/sphx_glr_plot_tf_dics_thumb.png

Time-frequency beamforming using DICS

../_images/sphx_glr_plot_tf_lcmv_thumb.png

Time-frequency beamforming using LCMV

../_images/sphx_glr_plot_time_frequency_mixed_norm_inverse_thumb.png

Compute MxNE with time-frequency sparse prior

Input/Ouput ¶

Reading and writing files.

../_images/sphx_glr_plot_objects_from_arrays_thumb.png

Creating MNE objects from data arrays

../_images/sphx_glr_plot_read_and_write_raw_data_thumb.png

Reading and writing raw files

../_images/sphx_glr_plot_read_epochs_thumb.png

Reading epochs from a raw FIF file

../_images/sphx_glr_plot_read_evoked_thumb.png

Reading and writing an evoked file

../_images/sphx_glr_plot_read_noise_covariance_matrix_thumb.png

Reading/Writing a noise covariance matrix

../_images/sphx_glr_read_events_thumb.png

Reading an event file

Preprocessing ¶

Examples related to data preprocessing (artifact detection / rejection etc.)

../_images/sphx_glr_plot_corrmap_detection_thumb.png

Identify similar ICs across multiple datasets via CORRMAP

../_images/sphx_glr_plot_define_target_events_thumb.png

Define target events based on time lag, plot evoked response

../_images/sphx_glr_plot_eog_artifact_histogram_thumb.png

Show EOG artifact timing

../_images/sphx_glr_plot_estimate_covariance_matrix_baseline_thumb.png

Estimate covariance matrix from Epochs baseline

../_images/sphx_glr_plot_estimate_covariance_matrix_raw_thumb.png

Estimate covariance matrix from a raw FIF file

../_images/sphx_glr_plot_find_ecg_artifacts_thumb.png

Find ECG artifacts

../_images/sphx_glr_plot_find_eog_artifacts_thumb.png

Find EOG artifacts

../_images/sphx_glr_plot_interpolate_bad_channels_thumb.png

Interpolate bad channels for MEG/EEG channels

../_images/sphx_glr_plot_maxwell_filter_thumb.png

Maxwell filter raw data

../_images/sphx_glr_plot_rereference_eeg_thumb.png

Re-referencing the EEG signal

../_images/sphx_glr_plot_resample_thumb.png

Resampling data

../_images/sphx_glr_plot_run_ica_thumb.png

Compute ICA components on epochs

../_images/sphx_glr_plot_shift_evoked_thumb.png

Shifting time-scale in evoked data

../_images/sphx_glr_plot_virtual_evoked_thumb.png

Remap MEG channel types

../_images/sphx_glr_plot_xdawn_denoising_thumb.png

XDAWN Denoising

Real-time M/EEG Acquisition ¶

Receive data from an MNE Real-time server (mne_rt_server, part of MNE-CPP), compute real-time moving averages, etc.

../_images/sphx_glr_ftclient_rt_average_thumb.png

Compute real-time evoked responses with FieldTrip client

../_images/sphx_glr_ftclient_rt_compute_psd_thumb.png

Compute real-time power spectrum density with FieldTrip client

../_images/sphx_glr_plot_compute_rt_average_thumb.png

Compute real-time evoked responses using moving averages

../_images/sphx_glr_plot_compute_rt_decoder_thumb.png

Decoding real-time data

../_images/sphx_glr_rt_feedback_client_thumb.png

Real-time feedback for decoding :: Client Side

../_images/sphx_glr_rt_feedback_server_thumb.png

Real-time feedback for decoding :: Server Side

Data Simulation ¶

Tools to generate simulation data.

../_images/sphx_glr_plot_simulate_evoked_data_thumb.png

Generate simulated evoked data

../_images/sphx_glr_plot_simulate_raw_data_thumb.png

Generate simulated raw data

Statistics Examples ¶

Some examples of how to compute statistics on M/EEG data with MNE.

../_images/sphx_glr_plot_cluster_stats_evoked_thumb.png

Permutation F-test on sensor data with 1D cluster level

../_images/sphx_glr_plot_fdr_stats_evoked_thumb.png

FDR correction on T-test on sensor data

../_images/sphx_glr_plot_linear_regression_raw_thumb.png

Regression on continuous data (rER[P/F])

../_images/sphx_glr_plot_sensor_permutation_test_thumb.png

Permutation T-test on sensor data

../_images/sphx_glr_plot_sensor_regression_thumb.png

Sensor space least squares regression

Time-Frequency Examples ¶

Some examples of how to explore time frequency content of M/EEG data with MNE.

../_images/sphx_glr_plot_compute_raw_data_spectrum_thumb.png

Compute the power spectral density of raw data

../_images/sphx_glr_plot_compute_source_psd_epochs_thumb.png

Compute Power Spectral Density of inverse solution from single epochs

../_images/sphx_glr_plot_epochs_spectra_thumb.png

Compute the power spectral density of epochs

../_images/sphx_glr_plot_source_label_time_frequency_thumb.png

Compute power and phase lock in label of the source space

../_images/sphx_glr_plot_source_power_spectrum_thumb.png

Compute power spectrum densities of the sources with dSPM

../_images/sphx_glr_plot_source_space_time_frequency_thumb.png

Compute induced power in the source space with dSPM

../_images/sphx_glr_plot_stockwell_thumb.png

Time frequency with Stockwell transform in sensor space

../_images/sphx_glr_plot_temporal_whitening_thumb.png

Temporal whitening with AR model

../_images/sphx_glr_plot_time_frequency_multitaper_sensors_thumb.png

Time-frequency analysis using multitaper method

../_images/sphx_glr_plot_time_frequency_sensors_thumb.png

Time-frequency representations on topographies for MEG sensors

../_images/sphx_glr_plot_time_frequency_simulated_thumb.png

Time-frequency on simulated data (Multitaper vs. Morlet)

Visualization ¶

Looking at data and processing output.

../_images/sphx_glr_make_report_thumb.png

Make an MNE-Report with a Slider

../_images/sphx_glr_plot_channel_epochs_image_thumb.png

Visualize channel over epochs as an image

../_images/sphx_glr_plot_clickable_image_thumb.png

Demonstration of how to use ClickableImage / generate_2d_layout.

../_images/sphx_glr_plot_evoked_delayed_ssp_thumb.png

Create evoked objects in delayed SSP mode

../_images/sphx_glr_plot_evoked_erf_erp_thumb.png

Plotting ERF/ERP with evoked data

../_images/sphx_glr_plot_evoked_topomap_thumb.png

Plotting topographic maps of evoked data

../_images/sphx_glr_plot_evoked_topomap_delayed_ssp_thumb.png

Create topographic ERF maps in delayed SSP mode

../_images/sphx_glr_plot_evoked_whitening_thumb.png

Whitening evoked data with a noise covariance

../_images/sphx_glr_plot_meg_eeg_fields_3d_thumb.png

Plot M/EEG field lines

../_images/sphx_glr_plot_ssp_projs_sensitivity_map_thumb.png

Sensitivity map of SSP projections

../_images/sphx_glr_plot_ssp_projs_topomaps_thumb.png

Plot SSP projections topographies

../_images/sphx_glr_plot_topo_channel_epochs_image_thumb.png

Visualize channel over epochs as images in sensor topography

../_images/sphx_glr_plot_topo_compare_conditions_thumb.png

Compare evoked responses for different conditions

../_images/sphx_glr_plot_topo_customized_thumb.png

Plot custom topographies for MEG sensors

../_images/sphx_glr_plot_topography_thumb.png

Plot topographies for MEG sensors