[MINC-users] nonlinear registration in minc

[Andrew Janke]

> >I would like to perform a nonlinear registration of one image to another.
> >In fact it is the same patient, but there is some minor distortion in one
> >of the scans (that is affecting our tissue segmentation results).  So I'm
> >looking for a registration technique that will not only align the images
> >but correct for the distortion.

> There are, as far as I know, no convenient scripts available for subject
> to subject non-linear registration. So you'll have to use minctracc
> itself. The basic options you want are:
>
> -nonlinear: erm, I'm sure you can figure out what this option does.
> -xcorr: objective function
> -step: 3 values for the spacing of the deformation grid.
> -simplex: size of search area.
> -lattice_diameter: width of sub-lattice (three values)
> -iterations: number of iterations.

Hi Ernest,

Jason is right, there is no officially blessed script for doing this,
but of course I do have one myself that you are welcome to use.  You
may have to modify the first part (config) of the script for your
application but it generally does a good job as is. This script does
all the required blurring and hierarchical fitting that you will need.

I have attached it.



--
Andrew Janke      (a.janke at gmail.com || www.cmr.uq.edu.au/~rotor)
Canada->Montreal                                   Cell: +1 (514) 924 2012