help > subject's specific ROIs from freesurfer
Sep 7, 2015  07:09 AM | Jian Chen
subject's specific ROIs from freesurfer
Dear Expert,

I have problems with using ROI from freesurfer. I try to define multiple ROI and subject's space. I have converted freesurfer aparc.a2009s+aseg.mgz to "APARCOhNine_ROI.nii" in each subject's freesurfer mri directory. I have also have a text "APARCOhNine_ROI.txt" in the same directory. Import of freesurfer's ROI don't have any error and warning. However when I try to preprocessing by press "Done", I have the error massage:

CONN: RUNNING SETUP STEP
Warning: file /home/jiancscratch/TWINS_PET/SPM_conn_freesurfer/freesurfer/twin00474/mri/APARCOhNine_ROI.txt format not recognized
Warning: file /home/jiancscratch/TWINS_PET/SPM_conn_freesurfer/freesurfer/twin00572/mri/APARCOhNine_ROI.txt format not recognized
Operation terminated by user during rex>rex_do (line 672)

In rex (line 155)
[params.ROIdata,params.ROInames,params.ROIinfo.basis,params.ROIinfo.voxels,params.ROIinfo.files,params.ROIinfo.select,params.ROIinfo.trans]=rex_do(params,1);
In conn_rex (line 8)
[varargout{1:nargout}]=rex(varargin{:});
In conn_process (line 677)
[data{nroi1},namesroi{nroi},params]=conn_rex(Vsourcethis,Vmask{nroi}{min(nses,nsesstemp)},'summary_measure','mean','conjunction_mask',mask,'level',level,'scaling',scalingl
In conn_process (line 12)
case 'setup', disp(['CONN: RUNNING SETUP STEP']); conn_process([0:5]);
In conn (line 2415)
conn_process('setup');
In conn_menumanager (line 112)
feval(CONN_MM.MENU{n0}.callback{n1}{1},CONN_MM.MENU{n0}.callback{n1}{2:end});
Interrupt while evaluating uicontrol Callback.

my "APARCOhNine_ROI.txt" is formatted  as following:

ctx_lh_G_and_S_frontomargin
ctx_lh_G_and_S_occipital_inf
ctx_lh_G_and_S_paracentral
ctx_lh_G_and_S_subcentral
.....

Which is taken from FreeSurferColorLUT.txt. What is  the problem of my setup?

Thanks in advance from any help!

Jian

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TitleAuthorDate
subject's specific ROIs from freesurfer
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