I found this very useful script you wrote in 2007 :). I have
seperated my 2 sets of dt with the fslroi commands you wrote. I tried the
last line using fslmaths_32R .... but it says command not found. May I ask
what 32R stands for?
Would it be right if I use fslmaths av1_corr -add av2_corr -div 2 data for
the last step to average 2 repeat of dti 30 dir 5 b0? I checked my output
results and the values in the output image voxels is the average of the 2
avwmerge -t big4d data1 data2 #merge the averages into a single 4D file
bash eddy_correct big4d big4d_corr 0 #motion correct all data to first
bash -c "avwroi big4d_corr av1_corr 0 40"
bash -c "avwroi big4d_corr av2_corr 40 40"
avwmaths_32R av1_corr -add av2_corr -div 2 data #average motion corrected
Many Thanks in advance