[Eeglablist] Preprocessing revision 19.1

[Delorme, Arnaud]

Dear Julia,

There is no clear documentation right now but it will be updated hopefully soon. The old documentation still applies and the menus are still fairly similar. The main strategy is to go down the list of menu in the tools section as you preprocess your data.

This was the old menu

Change sampling rate
Filter the data >
Re-reference the data
Interpolate electrodes
----------------------------
Inspect/reject data by eye
Automatic channel rejection
Automatic continuous rejection
Automatic epoch rejection
----------------------------
Decompose data by ICA
Reject data epochs >
Reject data using ICA :>
Remove components from data
----------------------------
Extract epochs
Remove epoch baseline
----------------------------
Locate dipoles using DIPFIT

This is the new menu

Change sampling rate
Filter the data >
Re-reference the data
Interpolate electrodes
----------------------------
Inspect/reject data by eye
Reject data using Clean Rawdata and ASR
----------------------------
Decompose data by ICA
Inspect/label components by map
Classify components using ICLabel
Remove components from data
----------------------------
Extract epochs
Remove epoch baseline
----------------------------
Locate dipoles using DIPFIT

The main difference is the replacement of the menu items Automatic channel rejection, Automatic continuous rejection, with Automatic epoch rejection by ASR tools, which have been proven more efficient, as well as the addition of ICLabel to automatically label components (and removal of ICA epoch rejection tools which are relatively obsolete).

The move is towards simpler menu items (2 main menu items about 12 submenu items were dropped) to avoid confusion for naive users, as well as more automation and robustness - although manual inspection of data is very important and these menu items will always be there.

Arno

> On Dec 5, 2019, at 1:14 PM, Julia Basso <jbasso at vt.edu> wrote:
> 
> Dear Arno,
> 
> Thank you for your response! We see this note now. Is there new documentation on this new preprocessing pipeline for 19.1? Is it more streamlined and recommended to use (over the previous pipeline)?
> 
> Best,
> 
> Julia
> 
> On Tue, Nov 26, 2019 at 3:49 AM Delorme, Arnaud <adelorme at ucsd.edu> wrote:
> Dear Julia,
> 
> Yes, on EEGLAB 2019.1, you need to go to the preferences and show the old sets of menus.
> I put a note in the tutorial so people do not get confused. The top menu item of “Tools” also provide information on how to do so.
> 
> https://sccn.ucsd.edu/wiki/Chapter_01:_Rejecting_Artifacts
> 
> I am guessing this is the web page you were referring to, but if this is not the case, please let me know,
> 
> Arno
> 
> > On Nov 25, 2019, at 10:03 AM, Julia Basso <jbasso at vt.edu> wrote:
> > 
> > Dear Arnaud,
> > 
> > I am writing to inquire about the major revision of the preprocessing pipeline in version 19.1.
> > 
> > We previously were using a preprocessing pipeline that is outlined in the EEGLAB tutorials. However, with the updates in version 19.1, many of the features that we previously used (e.g., automatic channel rejection, automatic epoch rejection, etc.) are no longer there.
> > 
> > In its place is there is the feature, pop_clean_rawdata(). Is there some documentation on this new implementation? What steps should this replace? Is it recommended that ICA still be used after this step to clean eye movements and blinks?
> > 
> > Best,
> > 
> > Dr. Basso
> > -- 
> > Julia C. Basso, PhD, CYT
> > Senior Research Associate
> > Bickel Laboratory
> > 
> > Department of Human Nutrition, Foods & Exercise
> > Virginia Tech Carilion Research Institute
> > 1 Riverside Circle, Suite 104G
> > Roanoke, VA  24016
> > www.juliabasso.com
> > 
> > > 
> 
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> 
> -- 
> Julia C. Basso, PhD, CYT
> Senior Research Associate
> Bickel Laboratory
> 
> Department of Human Nutrition, Foods & Exercise
> Virginia Tech Carilion Research Institute
> 1 Riverside Circle, Suite 104G
> Roanoke, VA  24016
> www.juliabasso.com
> 
> 
>