[MINC-users] Masking voxels

[Kelvin Mok]

Michael Alexander Yee wrote:
> Hello!
>
> Is it possible to mask any voxel readings that are below a minimum desired
> reading?  I have used:
>
> mincmath name.mnc -segment -const2 40 90000  nameseg.mnc
>
> But it turns all readings into either 0 or 1.  Is there a command to use so
> that voxel readings within the range will keep their values instead of
> changing to 1?
>
> Thanks,
> Michael
> _______________________________________________
> MINC-users at bic.mni.mcgill.ca
> http://www2.bic.mni.mcgill.ca/mailman/listinfo/minc-users
>   

Hi Michael,

You can use minccalc and specify your rule with the switch "-expression"....

minccalc -expression "if (A[0]<N){out=0;}else{out=A[0];}" name.mnc 
name_thresholded.mnc

where N = your desired threshold value

Best,
Kelvin

-- 

Kelvin Mok
Dept. Neurology and Neurosurgery
McConnell Brain Imaging Centre
Montreal Neurological Institute, McGill University