= Introduction tutorials: Editing process =
http://neuroimage.usc.edu/brainstorm/Tutorials

Redactors:

 * '''Francois Tadel''': Montreal Neurological Institute
 * '''Elizabeth Bock''': Montreal Neurological Institute

Reviewers ''[current reviewing status] ''

 * '''Sylvain Baillet''': Montreal Neurological Institute ''[overview 1-14, no proofreading]''
 * '''Richard Leahy''': University of Southern California ''[validated 1-19]''
 * '''John Mosher''': Cleveland Clinic ''[not started]''
 * '''Dimitrios Pantazis''': Massachusetts Institute of Technology ''[validated 1-15]''

Expected timeline (2016)

 * '''March''': Tutorials #1-#21 (interface and pre-processing)
 * '''April''': Tutorials #22-#24 (source estimation and time-frequency)
 * '''May-June''': Tutorials #25-#28 (statistics and workflows)
 * '''July-Sept''': Cross-validation of the pipeline and the results with MNE, FieldTrip and SPM
 * '''October''': Presentation during a satellite meeting at the Biomag 2016 conference
 * '''Nov-Dec''': Connectivity tutorial

<<BR>><<BR>>

== Tutorial 10: Power spectrum and frequency filters ==
[CODE]

 * Richard, John, Sylvain: Finish the evaluation of the band-pass filters used in Brainstorm
 * Francois: Mark with an extended event the time segments that we cannot trust (edge effect)
 * Francois: Add warning if recordings are not long enough

[ONLINE DOC]

 * Richard, John, Sylvain: Section [[http://neuroimage.usc.edu/brainstorm/Tutorials/ArtifactsFilter#What_filters_to_apply.3F_.5BTODO.5D|What filters to apply?]]
 * Richard, John, Sylvain: Section [[http://neuroimage.usc.edu/brainstorm/Tutorials/ArtifactsFilter#Filters_specifications_.5BTODO.5D|Filters specifications]]

== Tutorial 12: Artifact detection ==
[ONLINE DOC]

 * Beth: Adding examples of the different detection processes. Section [[http://neuroimage.usc.edu/brainstorm/Tutorials/ArtifactsDetect#Other_detection_processes|Other detection processes]]

== Tutorial 13: Artifact cleaning with SSP ==
[CODE]

 * Francois: Check the length needed to filter the recordings (after finishing #10) <<BR>>Section [[http://neuroimage.usc.edu/brainstorm/Tutorials/ArtifactsSsp#SSP_Algorithm_.5BTODO.5D|SSP Algorithm]]

== Tutorial 15: Import epochs ==
[ONLINE DOC]

 * Richard, Sylvain, John, Francois: Define recommendations for epoch lengths (after finishing #10)  <<BR>>Section [[http://neuroimage.usc.edu/brainstorm/Tutorials/Epoching#Epoch_length_.5BTODO.5D|Epoch length]]

== Tutorial 20: Head modelling ==
[ONLINE DOC]

 * John, Richard, Sylvain: In-depth review of this sensitive tutorial
 * John, Richard, Sylvain: Section [[http://neuroimage.usc.edu/brainstorm/Tutorials/AllIntroduction#Tutorials.2FHeadModel.References_.5BTODO.5D|References]]

== Tutorial 22: Source estimation ==
[CODE]

 * John: Dipole scanning: Wrong orientations
 * John: Inverse code: sLORETA
 * John: Inverse code: NAI
 * John: Inverse code: Mixed head models
 * John, Richard, Sylvain: How to normalize unconstrained sources ?
 * Francois: Remove the warning messages in the interface
 * Francois: Call FieldTrip headmodels and beamformers
 * All: Unconstrained: PCA vs Norm?
  * http://www.ncbi.nlm.nih.gov/pubmed/25230358
  * http://www.nature.com/neuro/journal/v15/n6/full/nn.3101.html

[ONLINE DOC]

 * John, Richard, Sylvain: Section  [[http://neuroimage.usc.edu/brainstorm/Tutorials/SourceEstimation#Source_estimation_options_.5BTODO.5D|Source estimation options]]
 * John, Richard, Sylvain: Section  [[http://neuroimage.usc.edu/brainstorm/Tutorials/SourceEstimation#Advanced_options_.5BTODO.5D|Advanced options]]
 * John, Richard, Sylvain: Section  [[http://neuroimage.usc.edu/brainstorm/Tutorials/SourceEstimation#Equations_.5BTODO.5D|Equations]]
 * John, Richard, Sylvain: Section  [[http://neuroimage.usc.edu/brainstorm/Tutorials/SourceEstimation#References_.5BTODO.5D|References]]
 * John, Richard, Sylvain: Why are dSPM values 2x lower than Z-score ?
 * John, Richard, Sylvain: In-depth review of this sensitive tutorial

== Tutorial 24: Time-frequency ==
[CODE]

 * Enable option "Hide edge effects" for Hilbert (after finishing #10)

[ONLINE DOC]

 * Hilbert: Link back to the filters tutorial (after finishing #10)

== Tutorial 26: Statistics ==
 * Not evaluated yet

== Tutorial 27: Workflows ==
 * Not evaluated yet

== Tutorial 28: Scripting ==
 * Not evaluated yet

== Final steps ==
 * Francois: Check that the script tutorial_introduction.m produces the same output as tutorials
 * Francois: Check all the links in all the pages
 * Francois: Check the number of pages for each tutorial
 * Francois: Reference on ResearchGate, Academia and Google Scholar <<BR>>http://neuroimage.usc.edu/brainstorm/Tutorials/AllIntroduction
 * Francois: Remove useless images from all tutorials

<<BR>><<BR>><<BR>><<BR>><<BR>>[Additional important stuff]

== Phantom tutorial (for validation) ==
 * John: Prepare Elekta recordings to distribute on the [[Tutorials/PhantomElekta|tutorial page]]
 * Francois: Prepare the Elekta phantom anatomy
 * Francois: Prepare the analysis script
 * Francois: Edit the tutorial page

== Other analysis scenarios ==
 * Francois: Update all the tutorials (100+ pages)
 * Francois: Add number of pages in the tutorials

== Connectivity ==
 * Not documented at all
 * Richard, Sylvain: Define example dataset and precise results to obtain from them
 * Richard: How to assess significance from connectivity matrices
 * Francois: Preparation of a tutorial