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<p class=MsoNormal><font size=2 face=Arial><span lang=EN-GB style='font-size:
10.0pt;font-family:Arial'>Sorry, 1 thing to clarify in the last question: By “labelling
structures I recognize works fine” I meant setting power to 1 erverywhere
and then defining a roi, e.g. ‘Thalamus’ in ft_sourceplot. What I
see highlighted is the thalamus.<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-GB style='font-size:
10.0pt;font-family:Arial'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-GB style='font-size:
10.0pt;font-family:Arial'>Best,<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-GB style='font-size:
10.0pt;font-family:Arial'>Jan<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span lang=EN-GB
style='font-size:10.0pt;font-family:Arial;color:navy'><o:p> </o:p></span></font></p>
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<p class=MsoNormal><b><font size=2 face=Tahoma><span style='font-size:10.0pt;
font-family:Tahoma;font-weight:bold'>Von:</span></font></b><font size=2
face=Tahoma><span style='font-size:10.0pt;font-family:Tahoma'> FieldTrip
discussion list [mailto:<st1:PersonName w:st="on">FIELDTRIP@NIC.SURFNET.NL</st1:PersonName>]
<b><span style='font-weight:bold'>Im Auftrag von </span></b>Jan Hirschmann<br>
<b><span style='font-weight:bold'>Gesendet:</span></b> Freitag, 4. Juni 2010
15:21<br>
<b><span style='font-weight:bold'>An:</span></b> <st1:PersonName w:st="on">FIELDTRIP@NIC.SURFNET.NL</st1:PersonName><br>
<b><span style='font-weight:bold'>Betreff:</span></b> [FIELDTRIP] coordinates
and volumelookup</span></font><o:p></o:p></p>
</div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>Dear all,<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-GB style='font-size:
10.0pt;font-family:Arial'>I am using the function ft_volumelookup with the AFNI
atlas to find out the areas belonging to certain MNI coordinates. Regarding
this I have 3 little questions:<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-GB style='font-size:
10.0pt;font-family:Arial'><o:p> </o:p></span></font></p>
<p class=MsoNormal style='margin-left:36.0pt;text-indent:-18.0pt;mso-list:l0 level1 lfo2'><![if !supportLists]><font
size=2 face=Arial><span lang=EN-GB style='font-size:10.0pt;font-family:Arial'><span
style='mso-list:Ignore'>1)<font size=1 face="Times New Roman"><span
style='font:7.0pt "Times New Roman"'> </span></font></span></span></font><![endif]><font
size=2 face=Arial><span lang=EN-GB style='font-size:10.0pt;font-family:Arial'>If
I create a grid from template brain T1 (spm2) and multiply the .pos entries by
10 to convert to mm, as described in the example matlab scripts on the
fieldtrip homepage, the .pos entries are MNI coordinates, right?<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-GB style='font-size:
10.0pt;font-family:Arial'><o:p> </o:p></span></font></p>
<p class=MsoNormal style='margin-left:36.0pt;text-indent:-18.0pt;mso-list:l0 level1 lfo2'><![if !supportLists]><font
size=2 face=Arial><span lang=EN-GB style='font-size:10.0pt;font-family:Arial'><span
style='mso-list:Ignore'>2)<font size=1 face="Times New Roman"><span
style='font:7.0pt "Times New Roman"'> </span></font></span></span></font><![endif]><font
size=2 face=Arial><span lang=EN-GB style='font-size:10.0pt;font-family:Arial'>When
I use volumelookup to look up coordinates (I am giving a mask as input which
really has only 1 nonzero entry) I often get the result: “no label
found”. Are there really that many places in the brain which do not have
a label in the atlas?<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-GB style='font-size:
10.0pt;font-family:Arial'><o:p> </o:p></span></font></p>
<p class=MsoNormal style='margin-left:36.0pt;text-indent:-18.0pt;mso-list:l0 level1 lfo2'><![if !supportLists]><font
size=2 face=Arial><span lang=EN-GB style='font-size:10.0pt;font-family:Arial'><span
style='mso-list:Ignore'>3)<font size=1 face="Times New Roman"><span
style='font:7.0pt "Times New Roman"'> </span></font></span></span></font><![endif]><font
size=2 face=Arial><span lang=EN-GB style='font-size:10.0pt;font-family:Arial'>When
using the function I get the warning: “homogenous transformation might be
incorrect for AFNI file”. Should I worry about this? Labelling structures
I recognize with the tool, e.g. thalamus, works fine, so I guess labels and
cords match.<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-GB style='font-size:
10.0pt;font-family:Arial'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-GB style='font-size:
10.0pt;font-family:Arial'>Thanks for your help!<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-GB style='font-size:
10.0pt;font-family:Arial'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-GB style='font-size:
10.0pt;font-family:Arial'>Jan<o:p></o:p></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>
<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>