Hi,
On 21 Feb 2008, at 06:42, Adil Javed wrote:
> Hi,
> I am interested in analyzing hippocampus volume change
> over time. Using First, I was able to segment the
> hippocampus by using first_flirt and run_first.
>
> Questions:
> 1-do I need to run boundry correction using
> first_utils if all I'm interetsed in is just an
> estimate of total hippocampus volume?
It's probably worth it, to get a slightly improved estimate, yes.
> 2-how do I calculate hippocampus volume from the files
> already generated by run_first? The output files I
> obtained are:
> Filename_L_hipp_n10_bcorr_p3.nii.gz
> Filename_L_hipp_n10.bvars
> Filename_L_hipp_n10.nii.gz
> Filename_L_hipp_n10.vtk
> Filename_3.nii
> Filename_to_std_sub.mat
> Filename_to_std_sub.nii.gz
You can use fslstats on the .nii.gz image to get volume, or use
first_utils - see the "To calculate volumes from bvars files and apply
GLM:: " section in the manual.
Cheers.
>
>
>
> Thanks so much in advance,
> AJ
>
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Stephen M. Smith, Professor of Biomedical Engineering
Associate Director, Oxford University FMRIB Centre
FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
+44 (0) 1865 222726 (fax 222717)
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