Example Datasets

To get you up and running with MNE-NIRS and fNIRS data analysis we provide some example datasets. Each dataset is published and if you use the data at any stage of your experiment (including piloting and exploration) then please cite the authors of the data.

A brief explanation of each dataset is provided below, and a demonstration of how to download the data and address it with MNE. Each dataset is provided in BIDs format, as such we can use the MNE-BIDS package to quickly report the number of trials for each condition in the dataset.

# sphinx_gallery_thumbnail_number = 1

# Authors: Robert Luke <mail@robertluke.net>
#
# License: BSD (3-clause)

import mne_bids.stats

import mne_nirs

Finger Tapping Data

This data is from the publication [1]. This data provides an example of the canonical finger tapping experiment. Data is provided from five participants. The experiment was a block design with three conditions. The first condition consisted of the participants tapping their thumb to fingers on the left hand, the second condition was the same but with the right hand. The final condition was a control, with no motor task.

datapath = mne_nirs.datasets.fnirs_motor_group.data_path()
mne_bids.stats.count_events(datapath)

	tapping
trial_type	15.0	Control	Tapping/Left	Tapping/Right
subject
01	2	30	30	30
02	2	30	30	30
03	2	30	30	30
04	2	30	30	30
05	2	30	30	30

Auditory Speech and Noise

This data is from the publication [2]. In this experiment listeners were presented with auditory stimuli via insertphones. Data is provided from seventeen participants. The experiment was a block design with three conditions. The first condition consisted of speech, the second condition consisted of low frequency noise. The final condition was a control, no audio was presented to the listeners.

datapath = mne_nirs.datasets.block_speech_noise.data_path()
mne_bids.stats.count_events(datapath)

		AudioSpeechNoise
	trial_type	Control	Noise	Speech
subject	session
01	01	20	20	20
02	01	20	20	20
03	01	20	20	20
04	01	20	20	20
05	01	20	20	20
06	01	20	20	20
07	01	20	20	20
08	01	20	20	20
09	01	20	20	20
10	01	20	20	20
11	01	20	20	20
12	01	20	20	20
13	01	20	20	20
14	01	20	20	20
15	01	20	20	20
16	01	20	20	20
17	01	20	20	20

Audio or Visual Speech

This data is from the publication [3]. In this experiment participants were presented a continuously running story in blocked segments. Each segment was presented as either audio only or visual only. In addition to the audio visual stimuli, a control condition was also presented randomly throughout the experiment.

datapath = mne_nirs.datasets.audio_or_visual_speech.data_path()
mne_bids.stats.count_events(datapath)

		AudioVisualBroadVsRestricted
	trial_type	Audio	Control	Video
subject	session
01	01	18	10	18
02	01	18	10	18
03	01	18	10	18
04	01	18	10	18
05	01	18	10	18
06	01	18	10	18
07	01	18	10	18
08	01	18	10	18

Bibliography

[1]

Robert Luke and David McAlpine. fNIRS Finger Tapping Data in BIDS Format. GitHub, 9 2021. doi:10.5281/zenodo.5529797.

[2]

Robert Luke, Eric Larson, Maureen J Shader, Hamish Innes-Brown, Lindsey Van Yper, Adrian KC Lee, Paul F Sowman, and David McAlpine. Analysis methods for measuring passive auditory fnirs responses generated by a block-design paradigm. Neurophotonics, 8(2):025008, 2021. doi:10.1117/1.NPh.8.2.025008.

[3]

Maureen J Shader, Robert Luke, Nathalie Gouailhardou, and Colette M McKay. The use of broad vs restricted regions of interest in functional near-infrared spectroscopy for measuring cortical activation to auditory-only and visual-only speech. Hearing Research, 406:108256, 2021. doi:10.1016/j.heares.2021.108256.

Estimated memory usage: 432 MB