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

[Alex Zijdenbos]

Or you can use create_verify_image (bundled with ILT), and pretty simply
create images like these:

PET to T1 <https://dl.dropboxusercontent.com/u/5709165/MINC/PET2T1_stx.png>
PET stx <https://dl.dropboxusercontent.com/u/5709165/MINC/PET_stx.png>

-- A


On Tue, Jan 20, 2015 at 6:44 PM, Andrew Janke <a.janke at gmail.com> wrote:

> 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
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>