Hi, yes, the first is to stack all the data into a single file (on your study average, usually that is fsaverage). The second steps smoothes the data. You can use different smoothing levels, depending on your data. Usually 10 or 15 is a good number.
The data will automatically be taken from the sub1t1.long.tempsub1 etc directories (this is signaled by the --qdec-long flag. The qdec table needs to be in the longitudinal format, that means the first column is the subject id (sub1-t1) the second column the base name (tempsub1) column headers are fsid fsid-base …. usually the third column is time from baseline (in years), but can be any time variable that you want to use in the LME. There is an example of the longitudinal qdec table here: http://freesurfer.net/fswiki/LongitudinalTwoStageModel I'll probably add that to the lme page so it is easier to find. Best, Martin On Feb 23, 2015, at 4:54 AM, amirhossein manzouri <a.h.manzo...@gmail.com> wrote: > Hi and thanks Martin for your help, > I am trying to do mixed effect analysis, should I use the registered to > template data for this ( sub1-t1.long.tempsub1 and sub1-t2.long.tempsub1) and > how should the aded.table.dat look like? Do I need to run : > mris_preproc --qdec-long qdec.table.dat --target study_average --hemi lh > --meas thickness --out lh.thickness.mgh > mri_surf2surf --hemi lh --s study_average --sval lh.thickness.mgh --tval > lh.thickness_sm10.mgh --fwhm-trg 10 --cortex --noreshape --------------------------------- Dr. Martin Reuter Assistant in Neuroscience - Massachusetts General Hospital Instructor in Neurology - Harvard Medical School MGH / HMS / MIT A.A.Martinos Center for Biomedical Imaging 149 Thirteenth Street, Suite 2301 Charlestown, MA 02129 Phone: +1-617-724-5652 Email: mreu...@nmr.mgh.harvard.edu reu...@mit.edu Web : http://reuter.mit.edu
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