[MINC-users] minc tool to correct orientation

[Robert VINCENT]

Oops, I got the sign wrong. It should be:

step(2) = -step(1)
start(2) = start(1)_+_((zlength-1)*step(1))

	-bert
>
On Thu, 30 Sep 2004, Robert VINCENT wrote:

> Yves,
>
> Depending on the exact nature of the error and the coordinate system, it
> could be as simple as changing the sign of the Z coordinate axis.
>
> Suppose you have the following situation:
>
> oberon 807% mincinfo bert_20030424_mri.mnc
> file: bert_20030424_mri.mnc
> image: signed__ short 0 to 4095
> image dimensions: xspace zspace yspace
>     dimension name         length         step        start
>     --------------         ------         ----        -----
>     xspace                     88            2     -88.2412
>     zspace                    256           -1        109.8
>     yspace                    256           -1      167.235
>
> To "flip" the Z axis in this case, I just need to change the step and
> start values as follows:
>
> step(2) = -step(1)
> start(2) = start(1)-((zlength-1)*step(1))
>
> So in this case the fix becomes:
>
> minc_modify_header -dinsert zspace:step=1 -dinsert zspace:start=-145.2
>
> This will exactly invert the sense of the Z direction without actually
> flipping the data.
>
> 	-bert
>
> On Thu, 30 Sep 2004, Roy Yves wrote:
>
> > Hi:
> >
> > I have 4D minc images of functional runs and the head appears upside down (after a dicom to minc conversion with dcm2mnc).
> >
> > Which minc tool can I run on these 4D images to correct the situation (i.e. to flip the head downside up) ?
> >
> > Many thanks
> > Yves
> >
> > _______________________________________________
> > MINC-users@bic.mni.mcgill.ca
> > http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users
> >
>
>