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<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'>Dear fieldtrip developers,<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US 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-US style='font-size:
10.0pt;font-family:Arial'>I don’t know whether it is a bug or due to badly
chosen settings, but I have experienced a problem with ft_topoplotER. I
suspect that the function does not plot power values appropriately in the presence
of labelcmb field. I do frequency analysis with the output powandcsd with the
newest fieldtrip release:<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'><o:p> </o:p></span></font></p>
<p class=MsoNormal style='text-indent:35.4pt'><font size=2 face=Arial><span
lang=EN-US style='font-size:10.0pt;font-family:Arial'>cfg=[];<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'>
cfg.method='mtmfft';<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'>
cfg.output='powandcsd';<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'>
cfg.calcdof='yes';<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'>
cfg.taper='hanning';<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'>
cfg.channelcmb={'MEG***2',refchan;'MEG***3',refchan};<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'>
cfg.foilim=[5 90];<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'>
freq1=ft_freqanalysis(cfg,data1);<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US 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-US style='font-size:
10.0pt;font-family:Arial'>What I get is a power spectrum matrix with all the
channels of the original data and a cross spectrum matrix according to my
labelcmb.<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US 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-US style='font-size:
10.0pt;font-family:Arial'>freq1 = <o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US 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-US style='font-size:
10.0pt;font-family:Arial'> label: {320x1
cell}<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'> dimord:
'chan_freq'<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'> freq: [1x88
double]<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'> powspctrm:
[320x88 double]<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'> labelcmb: {204x2
cell}<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'> crsspctrm:
[204x88 double]<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'> dof: [240x88
double]<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'> cumtapcnt:
[240x1 double]<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'> grad: [1x1
struct]<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'> cfg: [1x1
struct]<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US 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-US style='font-size:
10.0pt;font-family:Arial'>After having some doubts about the power topoplots I
set all but one channel in the .powspctrm field to 0.<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US 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-US style='font-size:
10.0pt;font-family:Arial'> freq1.powspctrm=zeros(size(freq1.powspctrm));<o:p></o:p></span></font></p>
<p class=MsoNormal><st1:State w:st="on"><st1:place w:st="on"><font size=2
face=Arial><span lang=EN-US style='font-size:10.0pt;font-family:Arial'>ind</span></font></st1:place></st1:State><font
size=2 face=Arial><span lang=EN-US style='font-size:10.0pt;font-family:Arial'>=strmatch('MEG2222',freq1.label);<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'>freq1.powspctrm(<st1:place w:st="on"><st1:State
w:st="on">ind</st1:State></st1:place>,:)=1;<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US 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-US style='font-size:
10.0pt;font-family:Arial'>When plotting I don’t see the one channel that
has power but everything is 0 (see topo1.jpg)<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US 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-US style='font-size:
10.0pt;font-family:Arial'>cfg=[];<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'>cfg.xparam='freq';<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'>cfg.zparam='powspctrm';<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'>cfg.cohrefchannel=refchan;<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'>cfg.layout='/data/apps/fieldtrip/latest/template/neuromag306all.lay';<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'>ft_topoplotER(cfg,freq1)<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US 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-US style='font-size:
10.0pt;font-family:Arial'>Yet, when I remove the labelcmb field from freq1 it
works alright (topo2.jpg)<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US 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-US style='font-size:
10.0pt;font-family:Arial'>freq1=rmfield(freq1,'labelcmb'); <o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US 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-US style='font-size:
10.0pt;font-family:Arial'>Likewise, I may get the index <st1:State w:st="on"><st1:place
w:st="on">ind</st1:place></st1:State> from freq1.labelcmb(:,1), set it to 1,
and it works. So it seems that topoplotER plots 204 channel values (number of
rows in .labelcmb and .crsspctrm) although there are 306 MEG channels in the frequency
data. I guess in such a situation channel data is neglected in the topoplots
without the user being aware and the values may not be plotted at the correct
place. I hope this helps in the development and is not simply a user error from
my side. <o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US 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-US style='font-size:
10.0pt;font-family:Arial'>Best to you,<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US style='font-size:
10.0pt;font-family:Arial'>jan<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=EN-US 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-US 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-US 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-US 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-US style='font-size:
10.0pt;font-family:Arial'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 color=blue face=Calibri><span lang=EN-US
style='font-size:10.0pt;font-family:Calibri;color:blue'>Jan Hirschmann</span></font><span
lang=EN-US><o:p></o:p></span></p>
<p class=MsoNormal><font size=2 color=blue face=Calibri><span lang=EN-US
style='font-size:10.0pt;font-family:Calibri;color:blue'>MSc. Neuroscience</span></font><span
lang=EN-US><o:p></o:p></span></p>
<p class=MsoNormal><font size=2 color=blue face=Calibri><span lang=EN-US
style='font-size:10.0pt;font-family:Calibri;color:blue'>Insititute of Clinical
Neuroscience and Medical Psychology</span></font><span lang=EN-US><o:p></o:p></span></p>
<p class=MsoNormal><st1:place w:st="on"><st1:PlaceName w:st="on"><font size=2
color=blue face=Calibri><span lang=EN-US style='font-size:10.0pt;font-family:
Calibri;color:blue'>Heinrich</span></font></st1:PlaceName><font size=2
color=blue face=Calibri><span lang=EN-US style='font-size:10.0pt;font-family:
Calibri;color:blue'> <st1:PlaceName w:st="on">Heine</st1:PlaceName> <st1:PlaceType
w:st="on">University</st1:PlaceType></span></font></st1:place><font size=2
color=blue face=Calibri><span lang=EN-US style='font-size:10.0pt;font-family:
Calibri;color:blue'> Duesseldorf</span></font><span lang=EN-US><o:p></o:p></span></p>
<p class=MsoNormal><font size=2 color=blue face=Calibri><span lang=EN-US
style='font-size:10.0pt;font-family:Calibri;color:blue'>Universitaetsstr.
1<br>
40225 Duesseldorf</span></font><span lang=EN-US><o:p></o:p></span></p>
<p class=MsoNormal><font size=2 color=blue face=Calibri><span lang=EN-US
style='font-size:10.0pt;font-family:Calibri;color:blue'>Tel: 0049 - (0)211 - 81
- 18415</span></font><span lang=EN-US><o:p></o:p></span></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>
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