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
--
----------------------------------------------------------------------------------------
Woo-Suk, Tae Ph.D. Research Professor
Brain Convergence Research Center, Medical Research Center
Anam Hospital, Korea University Medical Center, Seoul, Korea
mobile: 82-10-9120-4629
office: 82-2-920-6831
email: ws...@korea.ac.kr, woosuk....@gmail.com,
wo <woos...@naver.com>os...@gmail.com
----------------------------------------------------------------------------------------
_______________________________________________
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 Mass General Brigham
Compliance HelpLine at https://www.massgeneralbrigham.org/complianceline
<https://www.massgeneralbrigham.org/complianceline> .
Please note that this e-mail is not secure (encrypted). If you do not wish to
continue communication over unencrypted e-mail, please notify the sender of
this message immediately. Continuing to send or respond to e-mail after
receiving this message means you understand and accept this risk and wish to
continue to communicate over unencrypted e-mail.
