[Mristudio-users] corpus callsoum segmentation

[Xin Li]

Hello,

The dowload section is at https://www.mristudio.org/wiki/installation. You will find vcredist_x86.exe and vcredist_x64.exe there.


Xin




----- Original Message -----
From: Sona Saksena <saksena.sona at gmail.com>
Date: Thursday, February 11, 2010 11:34 am
Subject: Re: [Mristudio-users] corpus callsoum segmentation
To: "DTI Studio, ROI Editor, Landmarker Questions/Support" <mristudio-users at mristudio.org>


> Hello,
>  
>  I am not able to find the downlaod section in the
>   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
>  > 
>  > 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
>  > > _______________________________________________
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>  
>  
>  
>  -- 
>  Regards
>  Sona Saksena 
> _______________________________________________
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