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Commit 001e238

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Update proj_eeglab_subject_microstates.m
1 parent bc8afd4 commit 001e238

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-61
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1 file changed

+70
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‎eeglab/subject/proj_eeglab_subject_microstates.m‎

Lines changed: 70 additions & 61 deletions
Original file line numberDiff line numberDiff line change
@@ -58,10 +58,10 @@
5858

5959
% ms_dir=fullfile(plot_dir,'ms');
6060
% mkdir(ms_dir);
61-
%
61+
%
6262
% gevtotal_dir=fullfile(plot_dir,'gevtotal');
6363
% mkdir(gevtotal_dir);
64-
%
64+
%
6565
% mat_dir=fullfile(plot_dir,'mat');
6666
% mkdir(mat_dir);
6767

@@ -155,7 +155,7 @@
155155
[fpath,fname,fext] = fileparts(input_file_name);
156156
tmpEEG = pop_loadset('filename',[fname,fext],'filepath',fpath);
157157
end
158-
% tmpEEG = pop_loadset(input_file_name);
158+
% tmpEEG = pop_loadset(input_file_name);
159159
tmpEEG = pop_select(tmpEEG,'channel' ,1:project.eegdata.nch_eeg);
160160
tmpEEG = eeg_checkset(tmpEEG);
161161
ALLEEG = eeg_store(ALLEEG,tmpEEG, CURRENTSET);
@@ -210,29 +210,38 @@
210210
EEG.xmax = xmax_ms;
211211

212212

213-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
214-
% str2 = [str,'_',project.subjects.group_names{ng}];
213+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
214+
% str2 = [str,'_',project.subjects.group_names{ng}];
215215
EEG = pop_saveset( EEG, 'filename',[str2,'.set'],'filepath',input_path);
216216

217217

218218
end
219219

220220
if project.microstates.do_segment
221221

222-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
223-
% str2 = [str,'_',project.subjects.group_names{ng}];
222+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
223+
% str2 = [str,'_',project.subjects.group_names{ng}];
224224
EEG = pop_loadset( 'filename',[str2,'.set'],'filepath',input_path);
225225

226-
227-
EEG = pop_micro_segment( EEG, ...
228-
'algorithm', project.microstates.micro_segment.algorithm, ...
229-
'sorting', project.microstates.micro_segment.sorting,...
230-
'normalise', project.microstates.micro_segment.normalise, ...
231-
'Nmicrostates', project.microstates.micro_segment.Nmicrostates,...
232-
'verbose', project.microstates.micro_segment.verbose,...
233-
'determinism', project.microstates.micro_segment.determinism,...
234-
'polarity', project.microstates.micro_segment.polarity );
235-
226+
if strcmp(project.microstates.micro_segment.algorithm,'taah') ||...
227+
strcmp(project.microstates.micro_segment.algorithm,'aah')
228+
EEG = pop_micro_segment( EEG, ...
229+
'algorithm', project.microstates.micro_segment.algorithm, ...
230+
'sorting', project.microstates.micro_segment.sorting,...
231+
'normalise', project.microstates.micro_segment.normalise, ...
232+
'Nmicrostates', project.microstates.micro_segment.Nmicrostates,...
233+
'verbose', project.microstates.micro_segment.verbose,...
234+
'determinism', project.microstates.micro_segment.determinism,...
235+
'polarity', project.microstates.micro_segment.polarity );
236+
else
237+
EEG = pop_micro_segment( EEG, ...
238+
'algorithm', project.microstates.micro_segment.algorithm, ...
239+
'sorting', project.microstates.micro_segment.sorting,...
240+
'normalise', project.microstates.micro_segment.normalise, ...
241+
'Nmicrostates', project.microstates.micro_segment.Nmicrostates,...
242+
'verbose', project.microstates.micro_segment.verbose...
243+
);
244+
end
236245

237246
[ALLEEG EEG] = eeg_store(ALLEEG, EEG, CURRENTSET);
238247
EEG = pop_saveset( EEG, 'filename',[str2,'.set'],'filepath',input_path);
@@ -241,8 +250,8 @@
241250
EEG.xmin = xmin_ms;
242251
EEG.xmax = xmax_ms;
243252

244-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
245-
% str2 = [str,'_',project.subjects.group_names{ng}];
253+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
254+
% str2 = [str,'_',project.subjects.group_names{ng}];
246255
EEG = pop_saveset( EEG, 'filename',[str2,'.set'],'filepath',input_path);
247256

248257

@@ -252,15 +261,15 @@
252261

253262

254263
if project.microstates.do_viewNmicro
255-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
256-
% str2 = [str,'_',project.subjects.group_names{ng}];
264+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
265+
% str2 = [str,'_',project.subjects.group_names{ng}];
257266
EEG = pop_loadset( 'filename',[str2,'.set'],'filepath',input_path);
258267
%open figure to select
259268
EEG = pop_micro_selectNmicro( EEG );
260269
end
261270
if project.microstates.do_selectNmicro
262-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
263-
% str2 = [str,'_',project.subjects.group_names{ng}];
271+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
272+
% str2 = [str,'_',project.subjects.group_names{ng}];
264273
EEG = pop_loadset( 'filename',[str2,'.set'],'filepath',input_path);
265274
EEG = pop_micro_selectNmicro( EEG,...
266275
'Nmicro', project.microstates.selectNmicro.Nmicro_spontaneous );
@@ -270,8 +279,8 @@
270279
end
271280

272281
if project.microstates.do_fit
273-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
274-
% str2 = [str,'_',project.subjects.group_names{ng}];
282+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
283+
% str2 = [str,'_',project.subjects.group_names{ng}];
275284
EEG = pop_loadset( 'filename',[str2,'.set'],'filepath',input_path);
276285

277286
% EEG = pop_micro_fit( EEG,...
@@ -287,8 +296,8 @@
287296
[ALLEEG EEG] = eeg_store(ALLEEG, EEG, CURRENTSET);
288297

289298

290-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
291-
% str2 = [str,'_',project.subjects.group_names{ng}];
299+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
300+
% str2 = [str,'_',project.subjects.group_names{ng}];
292301

293302
EEG = pop_saveset( EEG, 'filename',[str2,'.set'],'filepath',input_path);
294303

@@ -306,8 +315,8 @@
306315

307316

308317
if project.microstates.do_smooth
309-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
310-
% str2 = [str,'_',project.subjects.group_names{ng}];
318+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
319+
% str2 = [str,'_',project.subjects.group_names{ng}];
311320
EEG = pop_loadset( 'filename',[str2,'.set'],'filepath',input_path);
312321

313322
EEG = pop_micro_smooth( EEG, ...
@@ -319,8 +328,8 @@
319328

320329
[ALLEEG EEG] = eeg_store(ALLEEG, EEG, CURRENTSET);
321330

322-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
323-
% str2 = [str,'_',project.subjects.group_names{ng}];
331+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
332+
% str2 = [str,'_',project.subjects.group_names{ng}];
324333

325334
EEG = pop_saveset( EEG, 'filename',[str2,'.set'],'filepath',input_path);
326335

@@ -335,17 +344,17 @@
335344
end
336345

337346
if project.microstates.do_stats
338-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
339-
% str2 = [str,'_',project.subjects.group_names{ng}];
347+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
348+
% str2 = [str,'_',project.subjects.group_names{ng}];
340349
EEG = pop_loadset( 'filename',[str2,'.set'],'filepath',input_path);
341350
EEG = pop_micro_stats( EEG,...
342351
'label_type', project.microstates.micro_stats.label_type,...
343352
'polarity', project.microstates.micro_stats.polarity );
344353

345354
[ALLEEG EEG] = eeg_store(ALLEEG, EEG, CURRENTSET);
346355

347-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
348-
% str2 = [str,'_',project.subjects.group_names{ng}];
356+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
357+
% str2 = [str,'_',project.subjects.group_names{ng}];
349358

350359
EEG = pop_saveset( EEG, 'filename',[str2,'.set'],'filepath',input_path);
351360

@@ -515,17 +524,17 @@
515524
EEG.xmin = xmin_ms;
516525
EEG.xmax = xmax_ms;
517526

518-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
519-
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
527+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
528+
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
520529
EEG = pop_saveset( EEG, 'filename',[str2,'.set'],'filepath',input_path);
521530

522531

523532
end
524533

525534
if project.microstates.do_segment
526535

527-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
528-
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
536+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
537+
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
529538
EEG = pop_loadset( 'filename',[str2,'.set'],'filepath',input_path);
530539

531540

@@ -550,26 +559,26 @@
550559
EEG.xmax = xmax_ms;
551560

552561

553-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
554-
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
562+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
563+
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
555564
EEG = pop_saveset( EEG, 'filename',[str2,'.set'],'filepath',input_path);
556565

557566

558567
end
559568

560569

561570
if project.microstates.do_viewNmicro
562-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
563-
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
571+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
572+
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
564573
EEG = pop_loadset( 'filename',[str2,'.set'],'filepath',input_path);
565574
%open figure to select
566575
EEG = pop_micro_selectNmicro( EEG );
567576
end
568577

569578

570579
if project.microstates.do_selectNmicro
571-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
572-
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
580+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
581+
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
573582
EEG = pop_loadset( 'filename',[str2,'.set'],'filepath',input_path);
574583

575584
EEG = pop_micro_selectNmicro( EEG,...
@@ -589,8 +598,8 @@
589598

590599
end
591600
if project.microstates.do_fit
592-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
593-
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
601+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
602+
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
594603
EEG = pop_loadset( 'filename',[str2,'.set'],'filepath',input_path);
595604

596605
EEG = pop_micro_fit( EEG,...
@@ -615,8 +624,8 @@
615624
end
616625
if project.microstates.do_smooth
617626

618-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
619-
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
627+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
628+
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
620629
EEG = pop_loadset( 'filename',[str2,'.set'],'filepath',input_path);
621630

622631
EEG = pop_micro_smooth( EEG, ...
@@ -643,8 +652,8 @@
643652

644653
if project.microstates.do_stats
645654

646-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
647-
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
655+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
656+
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
648657
EEG = pop_loadset( 'filename',[str2,'.set'],'filepath',input_path);
649658

650659

@@ -678,8 +687,8 @@
678687
ylim manual
679688
ylim(project.microstates.MicroPlotSegments.plot_ylim)
680689

681-
% str = ['microstates','_',project.microstates.suffix];
682-
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
690+
% str = ['microstates','_',project.microstates.suffix];
691+
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
683692

684693
suptitle(str2)
685694

@@ -703,16 +712,16 @@
703712

704713
if project.microstates.do_backfit
705714

706-
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
707-
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
715+
% str = ['microstates','_',microstate_type,'_',project.microstates.suffix];
716+
% str2 = [str,'_',project.subjects.group_names{ng},'_',current_cond_name];
708717
[ NewEEG] = pop_loadset( 'filename',[str2,'.set'],'filepath',input_path);
709718

710719
eeglab redraw
711720
ind_ms_set = tset+1;
712721
[ALLEEG EEG] = eeg_store(ALLEEG, NewEEG, ind_ms_set);
713722
eeglab redraw
714-
% [ALLEEG EEG CURRENTSET] = pop_newset(ALLEEG, EEG, ind_ms_set,'overwrite','on','gui','off');
715-
% eeglab redraw
723+
% [ALLEEG EEG CURRENTSET] = pop_newset(ALLEEG, EEG, ind_ms_set,'overwrite','on','gui','off');
724+
% eeglab redraw
716725
outpath_gevtotal = fullfile(gevtotal_dir,['gevtotal','_',current_cond_name,'.txt']);
717726
fid_gevtotal = fopen(outpath_gevtotal, 'a+');
718727
fprintf(fid_gevtotal, '%s\t%s\n','subject','gevtotal');
@@ -766,7 +775,7 @@
766775
row_epoch = [];
767776
col_epoch = [];
768777
epoch = [];
769-
778+
770779
for nepo = 1:EEG.trials
771780
mat_epoch = EEG.microstate.stats.TP(:,:,nepo);
772781
tmat = numel(mat_epoch);
@@ -775,14 +784,14 @@
775784
[rrow, ccol] = ind2sub(size(EEG.microstate.stats.TP), LIDX);
776785
row_epoch = [row_epoch, rrow];
777786
col_epoch = [col_epoch, ccol];
778-
epoch = [epoch, repmat(nepo,1,tmat)];
787+
epoch = [epoch, repmat(nepo,1,tmat)];
779788
end
780789
data_mat.epoch = epoch;
781790
data_mat.row = row_epoch;
782791
data_mat.col = col_epoch;
783792
data_mat.TP = TP_epoch;
784-
785-
793+
794+
786795
data_mat = structfun(@transpose,data_mat,'UniformOutput',false);
787796
data_mat = struct2table(data_mat);
788797
outpath_mat = fullfile(mat_dir,[fout,'_',current_cond_name,'_mat','.txt']);

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