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| Tuts #1-5 should have been done by the user | ||<40%>|| <!> ~+'''This tutorial is under construction'''+~ <!> || |
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| Presentation of the experiment: * finger tapping + description | 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. |
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| * Aude's data: 2 runs of XXX minutes each * MRI anatomy 3T * link to dataset |
List of prerequisites: |
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| '''Import anatomy + MRI''' | * [[http://neuroimage.usc.edu/brainstorm/Tutorials/CreateProtocol|Create a new protocol]] * [[http://neuroimage.usc.edu/brainstorm/Tutorials/ImportAnatomy|Import the subject anatomy]] * [[http://neuroimage.usc.edu/brainstorm/Tutorials/ExploreAnatomy|Display the anatomy]] * [[http://neuroimage.usc.edu/brainstorm/Tutorials/ChannelFile|Channel file / MEG-MRI coregistration]] * [[http://neuroimage.usc.edu/brainstorm/Tutorials/ReviewRaw|Review continuous recordings]] |
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| = 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 = |
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| '''Import NIRS functional data''' |
= Import NIRS functional data = |
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| '''NIRS-MRI coregistration''' |
= NIRS-MRI coregistration = |
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| '''Visualize signals ''' |
= Visualize NIRS signals = |
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This tutorial is under construction 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
![/!\](/moin_static198/brainstorm1/img/alert.png "/!\")
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”