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BEP030: Add fNIRS examples to master branch (#333)
* fNIRS example dataset (BEP030) (#305)
* Add fNIRS example dataset
* Use nirs branch for validator
* Update fnirs_tapping/dataset_description.json
Co-authored-by: Stefan Appelhoff <[email protected]>
* Fix spacing in name
* revert link change validator
Co-authored-by: Stefan Appelhoff <[email protected]>
* [ENH] New fNIRS example dataset: (non-)auto finger/foot tapping (#323)
* added another example dataset for fNIRS, see #317
* use the nirs branch of the validator from rob-luke/bids-validator
* replaced "large" PDF file with a zero-byte version
* updated fNIRRS example dataset to pass the validator
- fixed AnatomicalLandmarkCoordinateSy_t_em
- fixed NIRSCoordinateUnit_e_s
- removed txt from CHANGES
- added stimulus MATLAB m-files to bidsignore
- added sub-95 with n/a to practicelogbook.tsv
- use n/a for empty cells in practicelogbook.tsv
- added practicelogbook.tsv to bidsignore - HACK
- removed sub-77 json files from sub-75/nirs directory
- replaced 0-byte (empty) snirf files with 1-byte (still empty) snirf files - HACK
- use forward slashes in scans.tsv
- inserted "type" column in all optodes.tsv files
- reordered the columns of channels.tsv
* renamed stim to stimuli
* added SourceType back to a JSON file where I accidentally deleted it
* revert validator branch change, add entry to README
Co-authored-by: Stefan Appelhoff <[email protected]>
Co-authored-by: Rob Luke <[email protected]>
Co-authored-by: Robert Oostenveld <[email protected]>
This is an example and test version of the dataset that is scheduled to be published on https://doi.org/10.34973/vesb-mh30. As this example is shared prior to completion of the publication, the DOI may or may not yet work.
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Cockx, H.M. (Helena), Robert Oostenveld, Tabor, M. (Merel), Savenco, E. (Ecaterina), Setten, A. van (Arne), Cameron, I.G.M. (Ian), Wezel, R.J.A. van (Richard) (2022).
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Automatic and non-automatic finger and leg movements measured with functional near-infrared spectroscopy (fNIRS) [Data set].
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Experiment description
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----------------------
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This dataset includes the data of 24 participants performing automatic and non-automatic finger tapping and foot stepping movements in a block design.
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For the finger tapping tasks, participants needed to tap their right-hand fingers in the order of a 12-digit sequence on a numeric key pad, with 1, 2, 3, and 4 representing the index, middle, ring, and little finger respectively. For the foot stepping tasks, participants needed to step with their right foot on four floor pads in the order of a 12-digit sequence, with 1, 2, 3, and 4 representing a step in the middle, to the front, to the back, and to the side, respectively. Two different sequences of similar difficulty were learned (A:434141243212 and B:212321324241). One of the two was practiced 7 days before the experiment for 5 minutes a day each limb (considered the automatic sequences). The other sequence was only practiced for 5 minutes on the day of the experiment (considered the non-automatic sequence). Participants were pseudo-randomly assigned to start learning either sequence A or B in advance. Participants performed all four task under two conditions: either with or without a dual-task. The dual-task entailed performing the sequence while simultaneously counting the letter 'G' from a list of randomly appearing letters on the screen.
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fNIRS data was sampled with a multichannel fNIRS device (24 long and 12 short separation channels) over the left primary motor cortex, the left premotor cortex, the left and right dorsolateral prefrontal cortex, and the left and right posterior parietal cortex.
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Note for events.json
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--------------------
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During the dual-task conditions a random sequence of 8 letters (C, G, Q, or O) is shown (e.g. QGCQOGCG). The exact sequence of displayed letters is coded as 'shown_stimulus' in the events.tsv files.
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However, the number of potential letter combinations was too high to report them all in the events.json file. We therefore only reported one example of a letter string as level for the 'shown_stimulus' column (QGCQOGCG).
"Description": "Number of trial within the task condition. Each task was repeated 11 times (= 11 trials) in a row within a condition",
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"Range": "1 to 11"
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},
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"event_type": {
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"Description": "Primary categorization of the event to identify them as a experimental stimulus or a behavioural response by the participant",
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"Levels": {
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"stimulus": "experimental stimulus shown to the participant on the presentation screen",
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"finger press": "behavioural response by the participant: recorded key press",
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"foot step": "behavioural response by the participant: foot step as assessed by the experimenter, live/on video (value) and an accelerometer on the right foot (onset)"
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}
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},
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"executed_movement": {
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"Description": "Value of the finger press (recorded key press) or observed foot step (assessed by the researcher, live/on video)",
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"Levels": {
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"1": "index finger (finger)/step to the middle floor pad (foot)",
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"2": "middle finger (finger)/step to the front floor pad (foot)",
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"3": "ring finger (finger)/step to the back floor pad (foot)",
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"4": "little finger (finger)/step to the side floor pad (foot)"
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}
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},
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"correct_movement": {
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"Description": "Value of the finger press or foot step that the participant should have performed according to the given sequences",
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"Levels": {
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"1": "index finger (finger)/step to the middle floor pad (foot)",
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"2": "middle finger (finger)/step to the front floor pad (foot)",
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"3": "ring finger (finger)/step to the back floor pad (foot)",
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"4": "little finger (finger)/step to the side floor pad (foot)"
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}
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},
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"shown_stimulus": {
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"Description": "visual stimulus shown on the presentation screen",
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"Levels": {
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"white X": "small white fixation cross on the middle of the screen, indicating that the participant should relax and focus on the cross. At the beginning of a trial, a metronome sound of 1.5 Hz was played during the first 8 seconds of the white fixation cross.",
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"red X": "small red fixation cross in the middle of the screen, indicating that the participant should start tapping/stepping the sequence (once) during the single-task conditions",
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"QGCQOGCG": "random sequence of 8 letters (C, G, Q, or O) shown at random intervals (0.5-1.5 s) on the middle of the screen during the dual-task conditions. Participants needed to tap/step the sequence once, while simultaneously counting the letter G."
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}
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},
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"reported_gs": {
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"Description": "Reported number of G's, as counted by the particpant during the dual-task conditions."
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},
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"correct_gs": {
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"Description": "Correct number of G's, as calculated from the shown 8-letter sequence"
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},
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"included_trial": {
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"Description": "Trial was included in the final analysis",
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"Levels": {
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"0": "excluded",
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"1": "included"
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}
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},
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"reason_for_exclusion": {
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"Description": "Reason to exclude the trial from the final analysis, if applicable",
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"Levels": {
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"test trial": "first trial was always disregarded as a test trial",
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"erroneous trial": "trial with more than 1 error in the performed sequence"
"Description": "logbook filled in by the participants after each training session",
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"Remark": "Exact dates are removed to protect the privacy of the participants and are replaced by relative days in relation to the first practice day. Sometimes the participants forget to fill in the logbook and reported this practice session on another day. In this case, the relative day was reestimated based on their notes and the hour was set to n/a."
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},
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"day": {
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"Description": "practice day, relative to the first practice day (= day 1)"
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},
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"hour": {
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"Description": "hour that the logbook was filled in"
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},
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"practiceduration_finger": {
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"Description": "reported practice time for the finger tapping task",
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"Units": "minutes"
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},
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"practiceduration_foot": {
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"Description": "reported practice time for the foot stepping task",
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"Units": "minutes"
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},
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"selfassessment_finger": {
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"Description": "'On a scale from 1 to 10, how would rate your performance today?' for the finger tapping task",
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"Range": "1 (can't perform the sequence at all) to 10 (automaticity is reached)"
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},
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"selfassessment_foot": {
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"Description": "'On a scale from 1 to 10, how would rate your performance today?' for the foot stepping task",
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"Range": "1 (can't perform the sequence at all) to 10 (automaticity is reached)"
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},
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"notes": {
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"Description": "additional comments/observations/notes, reported by the participant"
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