[Eeglablist] Adaption of Makoto's batch code to preprocess multiple subjects

[Claudio Georgii]

Dear  eeglablist,

the original batch code (
https://sccn.ucsd.edu/wiki/Makoto%27s_useful_EEGLAB_code#Example_of_batch_code_to_preprocess_multiple_subjects)
uses continous data and we thought about adapting the code to use it for
epoched data.
This works fine for most of the code, but the "re-referencing" and "adjust
data rank for ICA" section. Because the dimensionality of the data matrix
is now 3D instead of 2D (due to the trial information)

Thus, I wanted to ask, whether the adaptions we made are correct (changes
marked in blue):

% Re-reference to average
EEG.nbchan = EEG.nbchan+1;
EEG.data(end+1, :, :) = zeros(1, EEG.pnts, EEG.trials); %just accounting
for the 3rd dimension
EEG.chanlocs(1,EEG.nbchan).labels = 'initialReference';
EEG = pop_reref( EEG, []);
EEG = pop_select(EEG, 'nochannel', {'initialReference'});

and more importantly:
% Adjust data rank for ICA
g.chanind = 1:EEG.nbchan; %based on computing the rank within 'pop_runica'
tmpdata = reshape(EEG.data(g.chanind, :,:), length(g.chanind),
EEG.pnts*EEG.trials);
tmprank = getrank(double(tmpdata(:,1:min(3000, size(tmpdata,2)))));
channelSubset = loc_subsets(EEG.chanlocs, tmprank);
EEG = pop_select( EEG,'channel', channelSubset{1});
EEG = pop_chanedit(EEG, 'eval','chans = pop_chancenter( chans, [],[]);');

In addition, in our case 'getrank' gives consistently the following warning:

Warning: fixing rank computation inconsistency (56 vs 55) most likely
because running under Linux 64-bit Matlab

We online average reference (during our recording). Might this produce this
warning message and thus can be 'ignored'?

Thank you very much for your help, in advance!

Best,
Claudio
-- 
Claudio Georgii, MSc.
Phd student
University of Salzburg - Department of Psychology
Eating Behavior Laboratory
Hellbrunnerstraße 34
5020 Salzburg - Austria

Phone: 0043- (0)662 8044 5164
E-Mail: claudio.georgii at sbg.ac.at
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