= Tutorial: Process functional NIRS data =
||<40%> || <!> ~+'''This tutorial is under construction'''+~ <!> ||


''Authors: Thomas Vincent, Zhengchen Cai''

Prerequisite:

 * [[http://neuroimage.usc.edu/brainstorm/Tutorials/NIRSDataImport|Import and visualize functional NIRS data]]

== Presentation of the experiment ==
 * Finger tapping task: 10 stimulation blocks of 30 seconds each, with rest periods of ~30 seconds
 * One subject, one NIRS acquisition run of 12''' '''minutes at 10Hz
 * 4 sources and 12 detectors (+ 4 proximity channels) placed above the right motor region
 * Two wavelengths: 690nm and 830nm
 * MRI anatomy 3T from /!\ ''' scanner type '''

== Extract stimulation events ==
Stimulation events are stored as a box signal in channel AUX2: values above a certain threshold indicate a stimulation block.

To transform this signal into Brainstorm events, drag and drop the NIRS data "S01_Block_FO_LH_Run01" in the Brainstorm process window. Click on "Run" and select Process "Events -> Detect events above threshold".

{{attachment:NIRSTORM_tut2_detect_events.gif||height="450"}}

Use the following parameters:
    * set "Event name" to "MOTOR"
    * select "Channel name": "AUX2"
    * set "Maximum threshold" to 3
    * Check "Use absolute value of signal"

Then run the process.

To view the results, right-click on "Link to raw file" under "S01_Block_FO_LH_Run01"  then "NIRS -> Display time series".

{{attachment:NIRSTORM_tut2_nirs_time_series_motor_events.gif||height="450"}}

The "MOTOR" event group has been created, by 10 events, each lasting 30 sec.

{{attachment:NIRSTORM_tut2_list_motor_events.gif||height="450"}}