[MINC-users] Outputting overlay of co-registered MINC files directly to a file

[Andrew Janke]

Claude and Vladimir's suggestions will certainly do what you are
requesting, but in case others are watching on, here is a somewhat
easier way to achieve what Claude posted albeit with slightly less
control on the chosen slice(s).

   mincpik -triplanar -tilesize 300 -horizontal -title "bob the cat"
input.mnc out.jpg

If like me, you'd like a slice offset from the centre by 10% of the
volume size in the sagittal direction then do this:

   mincpik -triplanar -tilesize 300 -horizontal -title "bob the cat"
-sagittal_offset_perc 10 input.mnc out.jpg


a

On 21 January 2015 at 06:31, Claude LEPAGE <claude at bic.mni.mcgill.ca> wrote:
> Hi Paul,
>
> Try something like this, in Perlish way:
>
>   `mincpik -clobber -slice 100 -axial -width 300 -lookup -spectral $input /tmp/axial.jpg`;
>   `mincpik -clobber -slice 100 -coronal -width 300 -lookup -spectral $input /tmp/coronal.jpg`;
>   `mincpik -clobber -slice 100 -sagittal -width 300 -lookup -spectral $input /tmp/sagittal.jpg`;
>   `montage -tile 3x1 -background black -geometry 300x300+1+1 /tmp/axial.jpg /tmp/coronal.jpg /tmp/sagittal.jpg image_t1.jpg`;
>
> $input is you minc file in stx space. You can play with the
> colour scheme if you don't like spectral.
>
> I do the above in a script when I convert from DICOM/nii to minc
> in order to check the sanity of the minc files.
>
> Claude
> _______________________________________________
> MINC-users at bic.mni.mcgill.ca
> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users