[FieldTrip] Coordsys issue ft_sourceplot

Andreas Sauer sauer.mpih at googlemail.com
Sun Jun 12 20:24:17 CEST 2016

Dear all,

after having calculated the sources of a MMN paradigm (4D-system), I’d like
to plot the results on one of the anatomy template files in the fieldtrip
directory (single_subj_T1_1mm.nii) or alternatively on a MNI T1 template
file (mni_icbm152_t1_tal_nlin_sym_09a.nii). Unfortunately, this is not
working well… As you can see on the attached picture, the functional data
is rotated by 90 degrees.

I guess that something gets mixed because of the different coordsystems of
functional and anatomical data. The functional data is 4D, which means ALS
orientation. The anatomical is MNI, so RAS orientation. The plotting works
fine, if I use a mri file which was converted in field trip (V2.mri) and
therefore is also in ALS orientation. However, the anatomy doesn’t look
very pretty…

Is there any way that I can transform the functional data to RAS
orientation or the anatomical data to ALS orientation, respectively?

I tried with ft_volumerealign. However, since the template file has no
fiducials, it is hard to really precisely do this.

Any input on how to plot the sources on one of these nice anatomical files
is highly appreciated!

Thanks and best regards,


Dipl.-Psych. Andreas Sauer
Max Planck Institute for Brain Research
Deutschordenstraße 46
60528 Frankfurt am Main

T: +49 69 96769 278
F: +49 69 96769 327
Email: sauer.mpih at gmail.com
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