Authors: Thomas Vincent, Zhengchen Cai

The current tutorial assumes that the tutorials 1 to 5 have been performed. Even if they focus on MEG data, they introduce Brainstorm features that are used in this tutorial.

List of prerequisites:

• Create a new protocol

• Import the subject anatomy

• Display the anatomy

• Channel file / MEG-MRI coregistration

• Review continuous recordings

Download

The dataset used in this tutorial is available online .

• Go to the Download link page of this website, and download the file: nirs_sample.zip

• Unzip it in a folder that is not in any of the Brainstorm folders

Presentation of the experiment

• One subject, two acquisition runs of XXX minutes

• Finger tapping task: XXX stimulation blocks of 30 seconds each, inter-stimulus interval of XXX seconds

• XXX sources and XXX detectors arranged in a XXX montage, with XXX proximity channels

• Two wavelengths: 690nm and 860nm

• MRI anatomy 3T from scanner type

Create a subject

Import anatomy

import Brainvisa head mesh and MRI file + provide datasets

mark fudicials

Import NIRS functional data

NIRS Acquisition + description

dataset files:

* 2 nirs files with proper SrcPos and DetPos fields

-> generate these from brainsight output merged with montage coords

-> check if there is a way to directly have this from brainsight without having to forge it

• 1 file of digitized coords of fiducials (NAS, LE, RE) as a txt file. Coords should be in the same referential as SrcPos and DetPos

NIRS-MRI coregistration

Use automatic registration

Keep only step 1

Display Optodes (adapted from “Display Sensors”)

- no helmet here -> should be able to show optode positions over head meshSKip manual registration

Edit the channel file

Introduce new nomenclature

S1D1WL1 NIRS_WL1 …S1D1WL2 NIRS_WL2 …

Visualize NIRS signals

Depends on tut #5

Introduce default channel groups: ALL, WL1, WL2

Just adapt sections “Montage selection” and “Channel selection”