beamformer tutorial - sourceplot/sourceinterpolate?

[Jan-Mathijs Schoffelen]

Dear Nela,

Are you using the tutorial data, or data of your own?

Best,

JM


On 17 Aug 2009, at 09:53, Nela Cicmil wrote:

> Dear all,
>
> I'm a new user of fieldtrip, and encounter a problem with sourceplot
> and
> sourceinterploate functions in the beamformer source analysis
> tutorial.
>
> In the tutorial, when using the function sourceplot to plot the
> source-interpolated data (that is produced by the function
> sourceinterpolate),
> my image created is completely different from the example in the
> tutorial.
>
> Specifically, the functional brain activity seems extremely
> magnified and is not
> contained within the boundaries of the mri anatomy (the slices of
> which are
> plotted in a different order from the tutorial example image). This
> image
> problem occurs even when the instructions are followed (as far as I
> am aware)
> exactly, using the latest possible downloaded tutorial data.
> Sourceplot works
> fine when plotting mri segmented data.
>
> My guess is that this is related to the warning I receive from
> sourceinterpolate
> in the step before sourceplot:
>
> Warning: assuming that the units are "mm"
>> In fieldtrip-20090808/private/estimate_units at 29
>  In fieldtrip-20090808/private/convert_units at 128
>  In sourceinterpolate at 208
> converting functional data from cm into mm
> converting units from 'cm' to 'mm'
>
> - because making the units of the anatomical data 1000x smaller
> *could* account
> for the problem with my plotted image. But when
> I try to fix these parameters, the warning appears:
>
> Warning: The option cfg.sourceunits is deprecated, support is no
> longer guaranteed
> The option cfg.mriunits is deprecated, support is no longer guaranteed
>
> - and it does not seem possible to change anything. I wonder if
> anyone can help
> me to work out a solution to this problem?
>
> Sorry to bother you with a query about a tutorial; it is just that I
> would like
> to have confidence that I can get the functions to work properly
> before
> attempting to analyze more complex data!
>
> Thanks in advance,
> Nela
>
> ps. I am using fieldtrip 20090808 on a Mac 10.5.8 with matlab 7.8.0
> (R2009a),
> and I have spm2 on my machine, working as far as I can tell.
>
> --
> Nela Cicmil
> D.Phil Candidate, Neurophysiology
> DPAG
> University of Oxford
>
>
> ----------------------------------
> 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 http://listserv.surfnet.nl/archives/fieldtrip.html
>  and http://www.ru.nl/neuroimaging/fieldtrip.

----------------------------------
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 http://listserv.surfnet.nl/archives/fieldtrip.html and http://www.ru.nl/neuroimaging/fieldtrip.