[Mristudio-users] corpus callsoum segmentation

[Xin Li]

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
>  >>
>  >>
>  >> _______________________________________________
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>  >> 
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>  >>
>  >>
>  >
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>  >
>  
>  
>  -- 
>  Regards
>  Sona Saksena 
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