help > loading subject specific mask from freesurfer
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Sep 21, 2017 06:09 PM | Rong Ye
loading subject specific mask from freesurfer
Dear CONN community,
I would like to perform a seed-ROI connectivity analysis based on the subject-specific space. The analysis I want to perform is to investigate the connectivity from one seed I have specified to those ROIs created after Freesurfer parcellation and segmentation. I followed some previous threads and loaded the output aparc.a2009s+aseg files from freesurfer. I also copied the ColorLUT.txt file into the participant folders and renamed them as suggested. When I load the images in CONN, what I expect would be CONN can recognise the files automatically then split brain structures into individual ROIs. However, I only got one image per subject and the following timeseries extraction step will be implemented only on the whole image rather than the ROIs specified within. Can someone please let me know whether what I did was correct? Many thanks!
Also, if anyone has any tips on how to do the analysis in the subject-specific space that would be very helpful. The resting state data has already been pre-processed using AFNI MEICA and coregistered with the individual T1 images. The seed is also an ROI file coregistered in T1 space.
All the best,
Ron
I would like to perform a seed-ROI connectivity analysis based on the subject-specific space. The analysis I want to perform is to investigate the connectivity from one seed I have specified to those ROIs created after Freesurfer parcellation and segmentation. I followed some previous threads and loaded the output aparc.a2009s+aseg files from freesurfer. I also copied the ColorLUT.txt file into the participant folders and renamed them as suggested. When I load the images in CONN, what I expect would be CONN can recognise the files automatically then split brain structures into individual ROIs. However, I only got one image per subject and the following timeseries extraction step will be implemented only on the whole image rather than the ROIs specified within. Can someone please let me know whether what I did was correct? Many thanks!
Also, if anyone has any tips on how to do the analysis in the subject-specific space that would be very helpful. The resting state data has already been pre-processed using AFNI MEICA and coregistered with the individual T1 images. The seed is also an ROI file coregistered in T1 space.
All the best,
Ron