On 12/18/2013 12:08 PM, Hamza Alshuft wrote:
>
> Dear Freesurfer experts
>
>
> When I ran: mris_anatomical_stats -i 0 0.002 -l label/lh.roi.label -t 
> / surf/lh.MD.mgh -b -f stats/lh.roi.stats subid lh   to get the DTI 
> value for a particular label, the function does not really take the 
> thresholds I set into account as it displayed:
>
> only considering thicknesses in the range [0.0,0.0].
>
You can ignore this. It is just a display error in that it only prints 
out 1 digit past the decimal, so the upper limit gets rounded to 0.0, 
but internally it will use 0.0 and 0.002.
>
> Is it because the range I want to detect is too small?
>
> Also, the result is always 0.001(mean DTI) +/-0.000 (std) for all the 
> subjects and all the different labels.
>

This is also probably a rounding/precision error in the output. I might 
use a combination of mri_binarize and mri_segstats for this. Eg,

mri_binarize --i lh.MD.mgh --min 0 --max .002 --o lh.MD.mask.mgh
mri_segstats --mask lh.MD.mask.mgh --slabel subject lh lh.roi.label  
--id 1 --sum lh.roi.stats
See if that gives you better results. If the precision of the digits in 
lh.roi.stats is not good enough, you can add --mul 100 to multiply 
everything by 100.

doug

> Thank you very much!
>
> Lily
>
>
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-- 
Douglas N. Greve, Ph.D.
MGH-NMR Center
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