[Mne_analysis] Discrepancy between visualization of freesurfer label and its vertices

[Hari Bharadwaj]

Hi Pavan,
  I suspects this is as a result of the freesurfer indexing being zero
based and MNE's being 1 based. If that were indeed the case, if you add
1 to the vertex numbers read by mne_read_label_file() before finding the
common vertices that would resolve it..

Regards,
Hari




On Wed, December 22, 2010 6:25 am, Pavan Ramkumar wrote:
> Dear MNE users,
>
> I observed a discrepancy between
>
> (1) the visualization of Freesurfer generated anatomical labels (*.label
> files) which can be loaded in mne_analyze with Labels --> Load Label
>
> AND
>
> (2) the actual vertices that the label contains. I visualize these
> vertices by reading in the label file with mne_read_label_file() in MATLAB
> and writing out an *.stc file with all vertices common between the label
> file and the vertices in the source space set to '1' and all the other
> source space vertices set to '0'.
>
> To be specific, I'm having trouble with the 'S_central-lh.label' file
> generated by Freesurfer 4.1.0. The visualizations (1) and (2) should look
> the same, but I notice that (2) also contains a couple of vertices on the
> medial wall.
>
> Has anyone else observed this before? How am I mistaken? Thanks for your
> comments.
>
> Kind regards,
> Pavan
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>


-- 
Hari Bharadwaj