[MINC-users] NMI for minc volumes

[jon pipitone]

Nice one!

Thank you *so* much Vlad.

Jon.

On Wed, Apr 25, 2012 at 2:48 PM, Vladimir S. FONOV <vladimir.fonov at gmail.com
> wrote:

> Hello,
>
> On Wed, Apr 25, 2012 at 12:30 PM, jon pipitone <jon.pipitone at utoronto.ca>
> wrote:
> > Vlad, do you mind sharing your code to do this?
>
> I've included it into EZminc package (
> https://github.com/BIC-MNI/EZminc develop branch )
>
> To compile it all you will have to install minc from
> https://github.com/BIC-MNI/minc , minc4itk branch and
>
> https://github.com/BIC-MNI/minc4itk
>
> the program itself is here:
> https://github.com/BIC-MNI/EZminc/blob/develop/tools/itk_similarity.cpp
>
>
>
> >> From: "Vladimir S. Fonov" <vladimir.fonov at gmail.com>
> >> To: minc-users at bic.mni.mcgill.ca
> >> Subject: Re: [MINC-users] NMI for minc volumes
> >> Message-ID: <4F981902.4080506 at gmail.com>
> >> Content-Type: text/plain; charset=ISO-8859-1; format=flowed
> >>
> >> Hello,
> >>
> >> I've been using a wrapper around ITK cost functions to achieve this.
> >> Right now it's not distributed as part of any package, but it is not
> >> difficult to compile.
> >>
> >> On 25/04/2012 10:12 AM, jon pipitone wrote:
> >> > Hey MINC Users,
> >> >
> >> > I'm wondering if anyone here knows about, or has written, some code to
> >> > compute the normalised mutual information of two minc volumes[1]?
> >> >
> >> > I see that minctracc uses nmi, and has a -measure option to output
> >> various
> >> > objective functions[2], except not NMI.  I'm hoping that there is a
> >> magical
> >> > utility out there to do this already that I'm just not aware of.
> >> >
> >> > Otherwise, I figure I'd dip into the minctracc code and see if I can
> >> expose
> >> > the measure either through the -measure flag, or as a separate
> utility (a
> >> > la xcorr_vol).  If I go this route and anyone has helpful pointers or
> >> > gotchas, let me know.
> >> >
> >> > Thanks all,
> >> >
> >> > Jon Pipitone
> >> > Research Imaging Centre
> >> > Centre for Addiction and Mental Health
> >> > Toronto, Ontario
> >> >
> >> >
> >> > [1] I've found one other person asking about this way back:
> >> >
> >>
> http://www.bic.mni.mcgill.ca/pipermail/minc-users/2005-August/000805.html
> >> >
> >> > [2] But I'm wary of the quality of the output:
> >> >
> >>
> http://www.bic.mni.mcgill.ca/pipermail/minc-users/2007-September/001705.html
> >> > _______________________________________________
>
> --
> Best regards,
>
>  Vladimir S. Fonov ~ vladimir <dot> fonov <at> gmail <dot> com
> _______________________________________________
> MINC-users at bic.mni.mcgill.ca
> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users
>