Dear Negar,
you could also try the Lesion Segmentation Toolbox for the MS patients:
http://www.applied-statistics.de/lst.html
In that case you can use both the T1 and the FLAIR images in order to detect the WM lesions. For any other data primarily the T1 images are used for segmentation, although you can also try to additionally use the T2 images in a multi-spectral approach. However, often the benefit is only visible in a better skull-stripping. This will also depend on the spatial resolution of your T2 images.
Best,
Christian
On Tue, 15 Mar 2016 12:52:47 +0330, Negar Chabi <[log in to unmask]> wrote:
>Dear all,
>
>I'm writing in regard to ask some questions related to voxel based
>morphometry analysis in MRI.I want to conduct some VBM analysis on our
>clinical MRI data to investigate the existing differences between each
>patient MRI data with control database; but I have some questions as the
>following:
>
>1. I have various brain MRI images from different patients for example
>Parkinson, MS (Multiple Sclerosis), Alzheimer and etc, is it true to use
>VBM for gray matter analysis for all the different types of diseases? (All
>the paper that I saw using VBM for gray matter analysis not for white
>matter or CSF)
>2. For each subject, there is different sequences of MRI, for example(T1,
>T2, Flair and etc), which sequence should I use for VBM analysis ( As I
>read different papers regarding VBM, I realized that they used T1 for their
>analysis), In addition there is different slices from different depths of
>brain in various planes (Saggital , Coronal and Transverse), How to read
>them in SPM software in order to do VBM analysis?
>3. I don't have enough healthy subjects in order to take them as our
>control database; would you please introduce me a proper T1 control
>database?
>
>
>I would greatly appreciate if anyone could help me in this case. Thanks all
>so much in advance for your help and consideration.
>
>All The Best.
>Sincerely.
>
>--
>Negar Chabi
>Msc of Biomedical engineering
>Persian Gulf Nuclear Medicine Research Center
>Bushehr University of Medical sciences
>
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