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This tutorial is under construction |
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:
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”