그물에 걸리지 않는 바람

1. 경로 설정:export PATH=/Applications/mrtrix3/release/bin:$PATH mrconvert [ options ] input output Dw gradient table export options -export_grad_mrtrix path -export_grad_fsl bvecs bvals Gradient table import options -fslgrad bvecs bvals Pipeline 1. dwidenoise dti_native.nii.gz dti_denoise.mif 2. dwipreproc -rpe_none -fslgrad dti.bvec dti.bval AP dti_denoise.mif dti_preproc..

Initial Processing http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FLIRT/StepByStep Stand-alone registration can be conducted using first linear (FLIRT) followed by non-linear (FNIRT) registration FLIRT is an example of a software that performs linear registration, meaning that it will translate, rotate, zoom and shear one image to match it with another. Sometimes the differences betwee..

Design_du_LME_1 (version 1).csv Design_du_LME_1 (version 1).xlsx Design_du_LME_1.xlsx Design_pr_LME_1 (version 1).xlsx

/usr/local/fsl/bin/probtrackx2 -x /Users/rehappydoc/Documents/Tracula/Yang_DuSung/mri/roi/10.nii.gz -l --onewaycondition --omatrix1 -c 0.2 -S 2000 --steplength=0.5 -P 100 --fibthresh=0.01 --distthresh=0.0 --sampvox=0.0 --xfm=/Users/rehappydoc/Documents/Tracula/Yang_DuSung/dmri/xfms/mni2diff.bbr.mat --avoid=/Users/rehappydoc/Documents/Tracula/Yang_DuSung/mri/roi/exclusionmask2...

a=importdata('bvecs.txt') % import data는 text.file에 있는 자료들은 data로 전환 시키는 명령어이다. ans = -1.0000 -0.0003 -0.0001 -0.0001 1.0000 0.0002 0.0000 -0.0004 1.0000 0.0421 -0.1143 -0.9926 -0.1748 -0.2007 -0.9639 -0.2321 -0.1630 -0.9590 -0.3670 0.0265 -0.9298 -0.1899 0.3747 -0.9075 0.1169 0.8334 -0.5401 0.2009 0.2530 -0.9464 0.4962 0.1347 -0.8577 0.01..

여기의 숫자에 따라서 brain의 ROI의 번호가 설정된다. https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/AnatomicalROI/FreeSurferColorLUT

bash-3.2$ /usr/local/fsl/bin/probtrackx2 -x /Users/PosnerLab/Documents/Yang_DuSung/mri/roi/49_dil.nii.gz -l --onewaycondition -c 0.2 -S 2000 --steplength=0.5 -P 100 --fibthresh=0.01 --distthresh=0.0 --sampvox=0.0 --xfm=/Users/PosnerLab/Documents/Yang_DuSung/dmri/xfms/mni2diff.bbr.mat --avoid=/Users/PosnerLab/Documents/Yang_DuSung/mri/roi/exclusionmask2.nii.gz --forcedir --opd ..

fslmaths [input volume] function [output volume] ex) fslmaths /Users/rehappydoc/Documents/data/Kim_TaeHyeon/Kim_TaeHyeon_3D/Kim_TaeHyeon_3D.nii -bin /Users/rehappydoc/Documents/data/Kim_TaeHyeon/Kim_TaeHyeon_3D/Kim_TaeHyeon_3D_mask -bin: binary file을 만드는 function fslmaths를 이용하여 ROI를 만들기 freesurfer의 segmentation을 이용하여 합친후, binary file..

xfms- 필요한 transformation matrix, 필요한 matrix file을 골라야 한다. fslmsth를 이용하여 MRI folder에서 aparc+aseg.mgz-> mriconvert-> aparc+aseg.mgz