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<font face="Georgia">Hi Jan-Mathijs,<br>
<br>
Thanks for the detailed response! I am very much aware of the dangers
of concatenating data over sessions and assuming the sensor space is
the same. In my case, the "runs" were all acquired during a single
session (i.e., 6 runs, 7 min each, in a single 50 min session) in which
head position was pretty carefully monitored. <br>
<br>
Your trick of manually defining allT4.grad to be the same as the
original data file works just fine. I did originally try simply
specifying cfg.layout = NM306mag.lay (as well as other NM306***.lay
options), and these resulted in plots, but they were simply empty
square line grids with four boxes. Not sure why this was the case, but
as long as your fix works, I am all set for the moment.<br>
<br>
Thanks!<br>
David<br>
</font><br>
jan-mathijs schoffelen wrote:
<blockquote
cite="mid:C1E31124-9973-4F3A-B2E3-712AE124E6E2@donders.ru.nl"
type="cite">Dear David,
<br>
<br>
The reason why the sensor info is explicitly removed by ft_appenddata
is to ensure that people realize that combining multiple sessions may
be problematic or even downright 'forbidden' for some subsequent steps
in the analysis. Think of e.g. doing source analysis for a single
subject in which several sessions are combined. Since the subject's
position was slightly different during each recording sessions, there
is in fact not a guarantee that during one of the sessions the subject
would have sat facing backwards ;o). The leadfields computed in such a
case (appending with in one of the sessions the subject facing
backwards) will clearly be wrong for most of the data. Of course if you
were able to somehow compensate for the differences in position, e.g.
by applying the maxfilter, things may be different.
<br>
Yet, indeed for visualizing the results, and if you are confident that
there were no gross differences across the sessions with respect to the
positioning of the subject, there is no objection against keeping the
gradiometer info. Although I am a bit puzzled by the fact that you do
not seem to be able to visualize the data as you have it (because I
thought that provided you give the plotting function an appropriate
layout-file, in your case something like NM306xxx.lay, I would assume
that it just works even without sensor position info; for the layout
files, have a look in fieldtrip/templates, or at the wiki), you could
of course 'fool' fieldtrip by appending a grad-structure to your
concatenated data: allT4.grad = dataT4_list1.grad;
<br>
<br>
Hope this helps,
<br>
Jan-Mathijs
<br>
<br>
<br>
On Apr 14, 2010, at 9:19 PM, David Ziegler wrote:
<br>
<br>
<blockquote type="cite">Hi Fieldtrippers,
<br>
<br>
I have a similar situation where I have 3 "runs" of trials that were
<br>
collected separately on a neuromag306 system. I took Ingrid's advice
and
<br>
ran ft_appenddata on my preprocessed (e.g., trigger-based trial
selection,
<br>
artifact rejection, and preprocessing) data files to combine the three
<br>
datasets into a single file. The function worked, but with the warning
that
<br>
the sensor info was not consistent across trials:
<br>
<br>
<blockquote type="cite">
<blockquote type="cite">cfg=[];
<br>
allT4 = ft_appenddata(cfg, dataT4_list11, dataT4_list8, dataT4_list9);
<br>
</blockquote>
</blockquote>
input dataset 1, 308 channels, 32 trials
<br>
input dataset 2, 308 channels, 32 trials
<br>
input dataset 3, 308 channels, 32 trials
<br>
Warning: sensor information does not seem to be consistent across the
input
<br>
arguments
<br>
<blockquote type="cite">In ft_appenddata at 106
<br>
</blockquote>
concatenating the trials over all datasets
<br>
removing sensor information from output
<br>
output dataset, 308 channels, 96 trials
<br>
<br>
Is there a better way to concatenate several runs of similar trials
such
<br>
that the sensor information is preserved? I can generate an
time-locked
<br>
average on the resulting concatenated data, but I am not able to plot
it
<br>
using multiplot or topoplot, just by viewing individual single channels
<br>
(presumably due to the stripping of the sensory info).
<br>
<br>
Thanks for any advice!
<br>
David
<br>
<br>
----------------------------------
<br>
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. See also
<a class="moz-txt-link-freetext" href="http://listserv.surfnet.nl/archives/fieldtrip.html">http://listserv.surfnet.nl/archives/fieldtrip.html</a> and
<a class="moz-txt-link-freetext" href="http://www.ru.nl/neuroimaging/fieldtrip">http://www.ru.nl/neuroimaging/fieldtrip</a>.
<br>
<br>
</blockquote>
<br>
Dr. J.M. (Jan-Mathijs) Schoffelen
<br>
Donders Institute for Brain, Cognition and Behaviour,
<br>
Centre for Cognitive Neuroimaging,
<br>
Radboud University Nijmegen, The Netherlands
<br>
<a class="moz-txt-link-abbreviated" href="mailto:J.Schoffelen@donders.ru.nl">J.Schoffelen@donders.ru.nl</a>
<br>
Telephone: 0031-24-3668063
<br>
<br>
----------------------------------
<br>
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. See also
<a class="moz-txt-link-freetext" href="http://listserv.surfnet.nl/archives/fieldtrip.html">http://listserv.surfnet.nl/archives/fieldtrip.html</a> and
<a class="moz-txt-link-freetext" href="http://www.ru.nl/neuroimaging/fieldtrip">http://www.ru.nl/neuroimaging/fieldtrip</a>.
<br>
</blockquote>
<br>
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<p class="MsoNormal"><span
style="font-size: 11pt; font-family: "Bodoni MT";">David
A. Ziegler<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="font-size: 11pt; font-family: "Bodoni MT";">Department
of Brain and Cognitive Sciences <br>
Massachusetts Institute of Technology <br>
<st1:Street w:st="on"><st1:address w:st="on">43 Vassar St</st1:address></st1:Street><span
class="GramE">,<span style=""> </span>46</span>-5121 <br>
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<p class="MsoNormal"><span
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617-258-0765<o:p></o:p></span></p>
<p class="MsoNormal"><span
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617-253-1504<o:p></o:p></span></p>
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<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>