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<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>Hi Andrew,<o:p></o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'><o:p> </o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'><o:p> </o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span lang=EN-US
style='font-size:12.0pt'>> I would like to compare a clinical group with a
control group in one condition using<o:p></o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> the cluster-</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> based permuation test to see if there are
significant differences between the groups.</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> </span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> I tried the following design matrix acting as if
the control and clinical group were</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> two conditions,</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> but get the error that the matrix is improperly
specified:</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> </span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> adhd=5;</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> control=6;</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> </span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> design=zeros(2,adhd+control);</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> </span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> for i=1:adhd</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> design(1,i)=i;</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> end</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> for i=1:control</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> design(1,adhd+i)=i;</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> end</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'><o:p> </o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>Try this:<o:p></o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'><o:p> </o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span lang=EN-US
style='font-size:12.0pt'>for i=1:control<o:p></o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span lang=EN-US
style='font-size:12.0pt'> design(1,adhd+i)=i+adhd;<o:p></o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>end<o:p></o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'><o:p> </o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>Or, even simpler:<o:p></o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'><o:p> </o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>design(1,:)=[1:(adhd+control)];<o:p></o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'><o:p> </o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'><o:p> </o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>Good luck,<o:p></o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'><o:p> </o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>Eric Maris<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=3 face="Bookman Old Style"><span lang=EN-US
style='font-size:12.0pt;font-family:"Bookman Old Style"'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=3 face="Bookman Old Style"><span lang=EN-US
style='font-size:12.0pt;font-family:"Bookman Old Style"'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=3 face="Bookman Old Style"><span lang=EN-US
style='font-size:12.0pt;font-family:"Bookman Old Style"'>dr. <st1:PersonName
style="BACKGROUND-POSITION: left bottom; BACKGROUND-IMAGE: url(res://ietag.dll/#34/#1001); BACKGROUND-REPEAT: repeat-x"
tabIndex="0" w:st="on">Eric Maris</st1:PersonName><o:p></o:p></span></font></p>
<p class=MsoNormal><font size=3 face="Bookman Old Style"><span lang=EN-US
style='font-size:12.0pt;font-family:"Bookman Old Style"'>NICI/Biological
Psychology and<o:p></o:p></span></font></p>
<p class=MsoNormal><st1:place w:st="on"><st1:PlaceName w:st="on"><font size=3
face="Bookman Old Style"><span lang=EN-US style='font-size:12.0pt;font-family:
"Bookman Old Style"'>F.C.</span></font></st1:PlaceName><font
face="Bookman Old Style"><span lang=EN-US style='font-family:"Bookman Old Style"'>
<st1:PlaceName w:st="on">Donders</st1:PlaceName> <st1:PlaceType w:st="on">Center</st1:PlaceType></span></font></st1:place><font
face="Bookman Old Style"><span lang=EN-US style='font-family:"Bookman Old Style"'>
for Cognitive NeuroImaging<o:p></o:p></span></font></p>
<p class=MsoNormal><st1:place w:st="on"><st1:PlaceType w:st="on"><font size=3
face="Bookman Old Style"><span lang=EN-US style='font-size:12.0pt;font-family:
"Bookman Old Style"'>University</span></font></st1:PlaceType><font
face="Bookman Old Style"><span lang=EN-US style='font-family:"Bookman Old Style"'>
of <st1:PlaceName w:st="on">Nijmegen</st1:PlaceName></span></font></st1:place><font
face="Bookman Old Style"><span lang=EN-US style='font-family:"Bookman Old Style"'><o:p></o:p></span></font></p>
<p class=MsoNormal><st1:address w:st="on"><st1:Street w:st="on"><font size=3
face="Bookman Old Style"><span lang=EN-US style='font-size:12.0pt;font-family:
"Bookman Old Style"'>P.O. Box</span></font></st1:Street><font
face="Bookman Old Style"><span lang=EN-US style='font-family:"Bookman Old Style"'>
9104</span></font></st1:address><font face="Bookman Old Style"><span
lang=EN-US style='font-family:"Bookman Old Style"'><o:p></o:p></span></font></p>
<p class=MsoNormal><font size=3 face="Bookman Old Style"><span lang=EN-US
style='font-size:12.0pt;font-family:"Bookman Old Style"'>6500 HE Nijmegen<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=3 face="Bookman Old Style"><span lang=EN-US
style='font-size:12.0pt;font-family:"Bookman Old Style"'>The <st1:place w:st="on"><st1:country-region
w:st="on">Netherlands</st1:country-region></st1:place><o:p></o:p></span></font></p>
<p class=MsoNormal><font size=3 face="Bookman Old Style"><span lang=EN-US
style='font-size:12.0pt;font-family:"Bookman Old Style"'>T:+31 24 3612651
(NICI)<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=3 face="Bookman Old Style"><span lang=EN-US
style='font-size:12.0pt;font-family:"Bookman Old Style"'>T:+31 24 3610754
(FCDC)<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=3 face="Bookman Old Style"><span lang=EN-US
style='font-size:12.0pt;font-family:"Bookman Old Style"'>F:+31 24 3616066
(NICI)<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=3 face="Bookman Old Style"><span lang=EN-US
style='font-size:12.0pt;font-family:"Bookman Old Style"'>E: maris@nici.ru.nl<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=3 face="Bookman Old Style"><span lang=EN-US
style='font-size:12.0pt;font-family:"Bookman Old Style"'>MSc Cognitive
Neuroscience :</span></font><font size=1 face=Verdana><span style='font-size:
9.0pt;font-family:Verdana'><a href="http://www.ru.nl/master/cns/"
title="http://www.ru.nl/master/cns/"><font size=3 face="Bookman Old Style"
title="http://www.ru.nl/master/cns/"><span title="http://www.ru.nl/master/cns/"><span
lang=EN-US style='font-size:12.0pt;font-family:"Bookman Old Style"'>www.ru.nl/master/cns/</span></span></font></a></span></font><font
size=1 face=Verdana><span lang=EN-US style='font-size:9.0pt;font-family:Verdana'><o:p></o:p></span></font></p>
<p class=MsoNormal><font size=3 face="Times New Roman"><span lang=EN-US
style='font-size:12.0pt'><o:p> </o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span lang=EN-US
style='font-size:12.0pt'><o:p> </o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span lang=EN-US
style='font-size:12.0pt'><o:p> </o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span lang=EN-US
style='font-size:12.0pt'><o:p> </o:p></span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> </span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> design(2,1:adhd)=1;</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> design(2,adhd+1:2*adhd+1) = 2;</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> </span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> cfg.design = design;</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> cfg.uvar = 1;</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> cfg.ivar = 2;</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> </span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> [stat_controlvsadhd] = timelockstatistics(cfg,</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> grandavgadhdnoise,grandavgcontrolnoise);</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> </span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> Do you have any suggestions?</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> </span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> Thank you</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> Andrew</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> </span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> ----------------------------------</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> The aim of this list is to facilitate the
discussion between users of the FieldTrip</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> toolbox, to share experiences and to discuss new
ideas for MEG and EEG analysis.</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> See also
http://listserv.surfnet.nl/archives/fieldtrip.html and</span></font></p>
<p class=MsoPlainText><font size=3 face="Bookman Old Style"><span
style='font-size:12.0pt'>> http://www.ru.nl/fcdonders/fieldtrip.</span></font></p>
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<p>----------------------------------</p>
<p>The aim of this list is to facilitate the discussion between users of the FieldTrip toolbox, to share experiences and to discuss new ideas for MEG and EEG analysis.</p>
<p> http://listserv.surfnet.nl/archives/fieldtrip.html</p>
<p> http://www.ru.nl/fcdonders/fieldtrip/</p>