[MINC-users] 6-parameter fitting with minctracc

[Laurence Mercier]

Hello Andrew,

> So to this end I wrote a thing called volcombine for just this reason
> (joining up 2 T1's).. :)  It generates a fit mask as part of the
> process as often subjects tend to move their faces and the likes.  It
> makes sure the result is 1/2 between the two input images. Get it
> here:
> 
>    http://mavis.anu.edu.au/scripts/volcombine

Thank you Andrew! I was just starting to combine 3D ultrasound sweeps 
(0.3 x 0.3 x 0.3 mm) taken at the same time point during surgery. They 
mostly overlap, but each of them only covers parts of the region of 
interest. By combining them I get a much larger field of view. Do you 
think your script (volcombine) will work for my application? Thank you!

Laurence




> mavis:~$ volcombine -help
> Usage:
>     volcombine [options] <in1.mnc> <in2mnc> <outfile.mnc>
> 
>     volcombine uses linear registration to combine two volumes into one.
>     These volumes are typically from a dual-acquisition that is used to
>     improve SNR and/or reduce movement artifact
> 
>        $ volcombine T1-1.mnc T1-2.mnc outfile.mnc
> 
> If you have more than 2 files then you could always use volgenmodel from here:
> 
>    http://mavis.anu.edu.au/scripts/volgenmodel
> 
> I would run it with this magic incantation:
> 
>    $ volgenmodel in1.mnc in2.mnc in3.mnc ... \
>          -output_model all-together-now.mnc \
>          -fit_stages lin,lin,lin,0,0,0,1,1,1
> 
> This will do 3 linear fits and then 3 nonlinear fits at the 16mm
> level.  You can change the fit parameters if you want with
> -config_file. Also if you have a SGE batch system and qbatch you can
> add a -batch option and it will suck up all the CPU's it can find.
> 
> With both of these there may be a few other scripts that you will have
> to download from the same directory..
> 
> Good luck!
> 
> 
> --
> Andrew Janke
> (a.janke at gmail.com || http://a.janke.googlepages.com/)
> Canberra->Australia    +61 (402) 700 883
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