[Mristudio-users] corpus callsoum segmentation

Thu Feb 11 11:34:42 EST 2010

Hello,

I am not able to find the downlaod section in the
https://www.mristudio.org/wiki/user_manual/landmarker/installation. Please
let me know how to download Vcredist_x86.exe and vcredist_x64.exe from the
download section.

Any help is highly appreciated.

thanks

On Wed, Feb 3, 2010 at 11:50 AM, Xin Li <xli16 at jhmi.edu> wrote:

> Hello Sona,
>
> You may need to install runtime components of Visual C++ libraries on your
> computer. Please take a look at
> https://www.mristudio.org/wiki/user_manual/landmarker/installation.
> Vcredist_x86.exe and vcredist_x64.exe are available in the download section.
>
> Hope this can solve your problem.
>
>
> Xin
>
>
>
>
> ----- Original Message -----
> From: Sona Saksena <saksena.sona at gmail.com>
> Date: Wednesday, February 3, 2010 10:56 am
> Subject: Re: [Mristudio-users] corpus callsoum segmentation
> To: "DTI Studio, ROI Editor, Landmarker Questions/Support" <
> mristudio-users at mristudio.org>
>
>
> > Hello,
> >
> >  I am facing a problem while downloading DiffeoMap-latest-x64.exe and
> >  ROIEditor-latest-x64.exe. After running the program, an option comes
> > WinZip
> >  Self-Extractor i.e. to unzip all the files by pressing the Unzip button.
> >  After unzipping the files the program does not work. Please let me
> > know how
> >  to proceed further.
> >
> >  Any help is highly appreciated.
> >
> >  thanks
> >
> >  regards
> >
> >  Sona Saksena
> >
> >
> >
> >
> >
> >
> >
> >  On Mon, Feb 1, 2010 at 4:12 PM, susumu mori <susumu at mri.jhu.edu> wrote:
> >
> >  > Hi Sona,
> >  >
> >  > This is a question about cross-subject brain registration. Your are
> >  > basically asking how we can identify the corresponding areas of the
> > CC
> >  > across multiple subjects. Witelson scheme is one of them, which
> > divide the
> >  > CC into the seven segments based on pre-defined distance-based
> criteria.
> >  > There are two often-counteracting factors in the mapping;
> reproducibility
> >  > (reliability) and granularity (the number of segmentation, or the
> > amount of
> >  > localization information).
> >  >
> >  > One extreme of the granularity is the entire CC, in which we get
> > one number
> >  > for the entire CC (e.g. the size of the mid-sagittal CC). The
> > reliability of
> >  > the CC definition is high across the subjects because we can
> unambiguously
> >  > define the mid-sagittal CC for any subjects, but the localization
> >  > information is the poorest. If only the genu of the CC is abnormal,
> > such an
> >  > effect would be diluted by measuring the entire CC at once.
> >  >
> >  > Another extreme is the pixel-based analysis, in which we have to
> > make a
> >  > complete mapping of each pixel between the two subject. If there
> > are 5,000
> >  > 1x1x1 mm pixels within the mid-sagittal CC, we need to map the all
> > 5,000
> >  > pixels to another brain. This is basically the same as making the
> > two CC
> >  > shapes the identical by image transformation. This has the highest
> >  > localization information but the reliability is a tough issue.
> > Depending on
> >  > which transformation algorithm you use, you get different results.
> > This
> >  > approach has a potential to pin-point a small abnormal region
> > within the CC,
> >  > but such an effect could be diluted if there is transformation
> > error. Also,
> >  > each pixel is very noisy and a pixel-based statistics may have poor
> >  > sensitivity. Often you need to apply a filtering that introduces
> >  > pixel-averaging for nearby pixels.
> >  >
> >  > The Witelson approach is somewhere between these two approaches. It
> > has
> >  > only 7 very large segments in which 100s of pixels are averaged.
> >  >
> >  > Now your question is, if we provide a tool to perform the Witelson
> >  > segmentation. The short answer is no, but if you take your question
> > as a
> >  > general brain registration question, the answer is yes.
> >  >
> >  > By using DiffeoMap, you can transform one brain to the other. We
> > are using
> >  > a very advanced diffeomorphic transformation developed by Michael
> > Miller. So
> >  > you will find the transformation results are of quite high quality.
> > Once you
> >  > transform one brain to the other, you can do pixel-based analysis.
> >  >
> >  > Then you can move the transformed images into RoiEditor, in which
> > you can
> >  > apply a pre-segmented brain atlas to segment the entire brain up to
> > 176
> >  > areas. Currently, the CC is segmented to three areas: genu, body, and
> >  > splenium. In this atlas, you can create your own segment. For
> > example, you
> >  > can segment the atlas CC to 7 Witelson segments. Then transform the
> > atlas to
> >  > each subject (or transform each subject to the atlas) to apply these
> >  > segments to registered brain.
> >  >
> >  > So, I would recommend you to take a look at www.mristudio.org and
> find
> >  > what you can do with DiffeoMap and RoiEditor.
> >  >
> >  > Susumu
> >  >
> >  >   On Mon, Feb 1, 2010 at 11:58 AM, Sona Saksena <
> saksena.sona at gmail.com>wrote:
> >  >
> >  >>  Hello,
> >  >>
> >  >> I would like to calculate ADC and FA values in the seven segments
> > of
> >  >> corpus callosum divided according to the Witelson scheme. CAn I do
> > that
> >  >> using DTIstudio software. Please let me know how to divide the corpus
> >  >> callsoum into seven segments using DTIstudio software or suggest
> > any other
> >  >> possible way to do it.
> >  >>
> >  >> Any help will be highly appreciated.
> >  >>
> >  >> thanks
> >  >>
> >  >> regards
> >  >>
> >  >> Sona Saksena
> >  >>
> >  >>
> >  >> _______________________________________________
> >  >> Mristudio-users mailing list
> >  >> Mristudio-users at mristudio.org
> >  >>
> >  >> Unsubscribe, send a blank email to:
> >  >> Mristudio-users-unsubscribe at mristudio.org
> >  >>
> >  >>
> >  >
> >  > _______________________________________________
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> >  >
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> >  >
> >  >
> >
> >
> >  --
> >  Regards
> >  Sona Saksena
> > _______________________________________________
> >  Mristudio-users mailing list
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> >
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-- 
Regards
Sona Saksena
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