Hi Rick, thanks yes I noticed that right after i sent you the message . I have a problem though about the type of output file, they are BRIK file (mean.brain.corr+tlrc.BRIK) and (mean.brain.corr+tlrc.HEAD) ! is that because I used the nifti file not tlrc file as input ? and also my mask file was in hdr. so I am not sure if I can use hdr and nifti file in these commands as input. you could see how it looks like as below:
3dTnorm -prefix unit.data DATA.nii
3dmaskave -quiet -mask BRAIN_MASK.hdr unit.data+tlrc.BRIK > brain.mean.1D
3dTcorr1D -prefix mean.brain.corr unit.data+tlrc.BRIK brain.mean.1D
So as you saind the results should be at mean.brain.corr+tlrc.BRIK?but how can i read a BRIK file?
Thanks,
Aral
