[MINC-users] mincrealign - reference point

[Andrew Janke]

>From a dig in the code, this would appear to be the line of interest:

   (my $tmpvalue2, at dsp_center) = split(/\s+/, `mincstats -CoM
-world_only $avg_pet_volume`);

Meaning the Centre of Mass of the input volume.  So you have two
options given that an affine matrix (the result of a realignment) can
be broken up in many different ways to resolve the rotations.

1: Calculate the COM using mincstats of the average pet volume and
then use this when you run xfm2param (the -centre option) on your
resulting transformation.

2: use the default COM of xfm2param (0,0,0) and assume all rotations
occur around this point.


a


On 10/26/06, Sylvia Cox <syl at bic.mni.mcgill.ca> wrote:
> Hey Andrew, thanks for your reply....mincrealign was developed by
> Anthonin Reilhac and Sebastien Sechet..to correct for motion in our PET
> (raclopride) images....it's in
> /data/disk2/anthonin/bin/mincrealign...
>
> Cheers,
>
> Syl
>
>
> Andrew Janke wrote:
> > On 10/23/06, Sylvia Cox <syl at bic.mni.mcgill.ca> wrote:
> >> Hi all,
> >> Can anyone tell me what the reference point (x,y,z coordinates) is for
> >> the rotations and translations of head movement calculated in mincrealign.
> >
> > I'm afraid you lost me, I have never heard of mincrealign?  Where is
> > it and where did you get it? :)
> >
> >
>
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>


-- 
Andrew Janke   (a.janke at gmail.com || http://a.janke.googlepages.com/)
Canada->Montreal                                   Cell: +1 (514) 924 2012