 |
 |
Regarding your second question about converting AFNI data to NIFTI, you can do this with 3dAFNItoNIFTI in the AFNI software package. 3dAFNItoNIFTI -float dset+orig The -float option forces the output to float which is useful if you have multiple sub-brick scale factors for 16-bit short integer data. Also most AFNI programs can read and write NIFTI themselves, so 3dcopy can do this with 3dcopy dset+orig dset.nii Other programs create NIFTI output if the dataset prefix is specified with the .nii suffix. For example, 3dcalc -a dset+orig -prefix dset.nii -expr 'a' Regards, Daniel Glen On Nov 17, 2008, at 11:37 AM, Dianne Patterson wrote: > Several questions: > 1) Does fsl_installer.sh overwrite whatever was in .profile, or > does it just add to .profile? > (I ask because after I used ./fsl_installer.sh to do a general > install on a mac tiger machine, > our path to the afni bin was lost and had to be put back in-thing > is, I didn't set up the afni path > in the first place, so I'm not sure what may have happened.) > > 2) Is there a simple way to convert BRIK/HEAD pairs into nifti.gz > files to view them in fsl? > > 3) Is there any difference between the results of the following 2 > procedures: > > a) Run probtrack with a termination mask > OR > b) Run probtrack without the termination mask, but then use the > mask to subtract any part of the tract > that overlaps the mask. > > Thankyou so much, > > -Dianne > > -- > Dianne Patterson, Ph.D. > [log in to unmask] > University of Arizona > SLHS 328 > 621-5105