NIRSTORM Course, Montreal 2020

A stable version of NIRSTORM used for the NIRSTORM course in Montreal, 2020.

v0.5: Merge pull request #100 from thomas-vincent/fix_for_release

• Add a safeguard when motion correction is producing negative values: warn and use offset.
• adapt to removal of field .samples in bst event structure (see brainstorm-tools/brainstorm3#199)
• Full GLM pipeline almost completed (still WIP):
  • import/export of manual markings (bad channel tagging, events) outside of bst DB
  • template-based using Colin27 or subject-specific anatomy
  • cortical projection using MNE and optical model
  • precoloring 1st level GLM
  • MFX 2nd level GLM contrasts
  • Computation of group-level masks, that can work with an atlas (ROI-based results)
  • Documentation available here: https://github.com/Nirstorm/nirstorm/wiki/%5BWIP%5D-GLM-pipeline:-surface-and-template-based
• tested with brainstorm v3.190521 (still need to test with latest brainstorm for final release)

Bug fixes and SCI

• bug fix in MBLL (log instead of log10)
• Improve unit testing of MBLL
• Add a dedicated process to compute dOD from raw signals
• Add computation of scalp coupling index (quality check)
• Add work-in-progress features: GLM and cortical signal projection using MNE

Stable May 2018 #1

Main nirs analysis features:

• classical analysis pipeline
• reconstruction with MEM and MNE
• optimal montage computation
• interface to MCXlab for forward model computation

Tested on windows and linux mainly.
More tests may be required on Mac OS.

Main TODO: merge shipped fork of brainentropy with official version.

release for the workshop 2018

Stable release for the workshop during the PERFORM week 2018

Basic fNIRS processings

Implements all features required to run the tutorial http://neuroimage.usc.edu/brainstorm/Tutorials/NIRSFingerTapping:

• .nirs data importation
• bad channel tagging
• events importation from CSV
• Modified Beer Lambert Law
• filtering (with brainstorm functions)
• window averaging (with brainstorm functions).