External Email - Use Caution
Dear Freesurfer experts
I finished TRACULA's trac-all steps. Then I'd like to transform all DTI pathways to MNI space. Are there any commands in freesurfer or any external neuroimaging softwares.
My scripts did not provided no transformation to MNI space.
#bet /Users/anal/RH_nml/FS/01/mri/orig/001.nii.gz /Users/anal/RH_nml/FS/01/mri/orig/001_betted.nii.gz #flirt -ref ${FSLDIR}/data/standard/MNI152_T1_2mm_brain -in /Users/anal/RH_nml/FS/01/mri/orig/001_betted.nii.gz -omat /Users/anal/RH_nml/FS/01/mri/orig/affine_transf.mat fnirt --in=/Users/anal/RH_nml/FS/01/mri/orig/001.nii.gz --aff=/Users/anal/RH_nml/FS/01/mri/orig/affine_transf.mat --cout=/Users/anal/RH_nml/FS/01/mri/orig/nonlinear_transf --config=T1_2_MNI152_2mm applywarp --ref=${FSLDIR}/data/standard/MNI152_T1_1mm --in=/Users/anal/RH_nml/FS/01/mri/orig/001.nii.gz --warp=/Users/anal/RH_nml/FS/01/mri/orig/nonlinear_transf --out=/Users/anal/RH_nml/FS/01/mri/orig/warped_001.nii.gz applywarp --ref=${FSLDIR}/data/standard/MNI152_T1_1mm --in=/Users/anal/RH_nml/TRA/01/dpath/fmajor_PP_avg33_mni_bbr/path.pd.nii.gz --warp=/Users/anal/RH_nml/FS/01/mri/orig/nonlinear_transf --premat=func2struct.mat --out=/Users/anal/RH_nml/TRA/01/dpath/fmajor_PP_avg33_mni_bbr/warped_fmajor.nii.gz
Sincerely
Woo-Suk, Tae Seoul, Korea