That looks exactly right. Are you experiencing a problem? I assume that
uS1_v01_06LOC_x001.img is a mean functional image of some sort (and not
a contrast image). Did you check the registration?
doug
Johannes Klackl wrote:
Dear all,
I'm currently trying to conduct a surface-based group analysis using
1st level contrast images from SPM5.
I wanted to ask if somebody could tell me if what I'm doing is OK. I
would relly appreciate your help!
I will now describe the procedure:
The functionals of each subject were realigned and unwarped using SPM5
preprocessing commands and then entered into an SPM 1st level designs.
Additionally, of course, cortical models from all subjects were
created using Freesurfer.
I used spmregister to realign the contrast images (con_0001.img) with
the Freesurfer anatomicals.
spmregister --s v01 --mov ../f2/auS1_v01_06LOC_x001.img --reg
v01_register.dat
Then I used mri_vol2surf (with the resulting registration file from
spmregister) to bring the volumetric information from the contrast
images onto each subject's individual surface.
mri_vol2surf --hemi lh --src con_0001.img --src_type analyze --srcreg
v01_register.dat --out lh.con_0001.mgh --out_type mgh --projfrac 0.5
--noreshape
After that, I used mri_surf2surf with ico as the target to bring all
the functionals from the individual subject surface onto a common
surface.
mri_surf2surf --hemi lh --srcsubject v01 --srcsurfval lh.con_0001.mgh
--src_type mgh --trgsubject ico --trgicoorder 7 --trgsurfval
lh.ico.con_0001.mgh --trg_type mgh
I was thinking about smoothing here, but I didn't do this yet.
Then, I used mri_concat to concatenate the functionals from all
subjects into one file and mri_glmfit to do the statistics.
Thanks,
Johannes Klackl, University of Salzburg
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Douglas N. Greve, Ph.D.
MGH-NMR Center
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