-
Notifications
You must be signed in to change notification settings - Fork 2
13. Morph fMRI data into a template surface volume
These are procedures to morph individual's fMRI data onto the brain surface of the brain volume of a target subject. The scripts were tested at /space/maki7/users/fhlin/smsini_array_nccu/063019/unpack on July 7 2019.
We first estimate the transformation to map an individual's fMRI onto his/her own anatomical space. A registration file, register.dat, is to be created.
> fslregister --s 063019 --mov bold/005/f.nii --reg ./register.dat --maxangle 70 --initxfm
[This script file] morphs the fMRI data in each folder (the sfmcprstc.nii in bold/005, bold/006, bold/007 in this example) on to the target subject ("fsaverage" in this example) brain surface. The output will be STC files for left and right hemispheres in the target directory ("../analysis" in this example). Totally six files are to be created:
063019_2_fsaverage_sfmcprstc_005-lh.stc
063019_2_fsaverage_sfmcprstc_005-rh.stc
063019_2_fsaverage_sfmcprstc_007-lh.stc
063019_2_fsaverage_sfmcprstc_007-rh.stc
063019_2_fsaverage_sfmcprstc_009-lh.stc
063019_2_fsaverage_sfmcprstc_009-rh.stc
NOTE The example script was recommended to be placed at the folder "unpack", where folders for fMRI in each run are at "bold/005", "bold/007" and "bold/009" inside "unpack".
[This script file] morphs the fMRI data in each folder (the sfmcprstc.nii in bold/005, bold/006, bold/007 in this example) on to the MNI 305 target subject with 2mm isotropic resolution. The output will be MGH files in the target directory ("../analysis" in this example). Totally three files are to be created:
sfmcprstc_005-tal.2mm.mgh
sfmcprstc_007-tal.2mm.mgh
sfmcprstc_009-tal.2mm.mgh
NOTE The example script was recommended to be placed at the folder "unpack", where folders for fMRI in each run are at "bold/005", "bold/007" and "bold/009" inside "unpack".