Hi Doug,

I tried to run the mri_surf2surf command as follows and got this error:

[b.overs~]$ mri_surf2surf --srcsubject fsaverage --srcsurfval lh.Yeo2011_7Networks_N1000.annot --trgsubject testsubj --trgsurfval lh.Yeo2011_7Networks_N1000.annot --hemi lh --save-annot
ERROR: Option --save-annot unknown
[b.overs~]$

I could not see any --save annot option in the help file. I am running this correctly? Should I be suing the .mgz file as the input or is the annotation file ok as this is what I want to resample?

Kind regards,

Bronwyn Overs
Research Assistant

Neuroscience Research Australia
Margarete Ainsworth Building
Barker Street Randwick Sydney NSW 2031 Australia
M 0411 308 769 T +61 2 9399 1883

On 6/05/2016 12:24 am, Douglas Greve wrote:


On 5/4/16 11:40 PM, Bronwyn Overs wrote:
Hi Freesurfer Mailing List,

I wish to extract stats for my sample for the Yeo 2011 cortical parcellations and the Choi 2012 striatal parcellations (7 networks) that are provided for download on the freesurfer wiki. My questions are as follows:

1. I noticed that the Yeo 2011 annot files are already available in fsaverage/label. How do I map these annot file to each of my subjects so that I can extract stats?
Use mri_surf2surf with the --save-annot option
2. For the Choi 2012 files I wish to use Choi2012_7Networks_MNI152_FreeSurferConformed1mm_TightMask.nii.gz . How do I map this file to each of my subjects so that I can extract stats for the 7Network parcellation?
I don't know about this file. Where is it? Is it something we distribute?
doug
--

Kind regards,

Bronwyn Overs
Research Assistant

Neuroscience Research Australia
Margarete Ainsworth Building
Barker Street Randwick Sydney NSW 2031 Australia
M 0411 308 769 T +61 2 9399 1883



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