Hello Freesurfer Experts,
I have a question to ask about extracting the mean time series from
resting-state fMRI (239 volumes).
I have used bbregister to bring the 4D fMRI data into T1 space. My next
objective is to project the data onto the fsaverage surface, and then extract
the mean time series for each ROI.
These are my steps so far. Can anyone let me know if I am on the right/wrong
track?
bbregister --s $i --mov ${i}_medn.nii (fMRI resting-state) --init-fsl --t2
--reg ${i}/fmri/fmri_t1.dat --o ${i}/fmri/fmri_t1.mgz
mri_vol2surf --src ${i}/fmri/fmri_t1.mgz --out ${i}/surf/lh.fmri.mgh --hemi lh
--projfrac 0.5 --interp nearest --regheader ${i} --trgsubject fsaverage
mri_segstats --i ${i}/surf/lh.fmri.mgh --annot fsaverage lh aparc --sum
${i}/stats/lh.fmri_aparc.sum
Ultimately, how may I derive a 239 (volumes) x 34 (ROIs per hemisphere) matrix
of the data?
Appreciate your help. Thanks!
Best Wishes,
Elijah
Elijah Mak, Research Associate
Department of Psychiatry, Old Age Psychiatry Group
University of Cambridge
Trinity College, CB21TQ, UK
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.
