Hi
try running siena with the -d option (debug) to force it not to delete
intermediate files. You could also mess with the siena script itself
if you're happy with reading/modifying scripts.
hth
Christian
On 4 Jul 2008, at 06:48, Justin Oughton wrote:
> Dear FMRIB lab,
> is it possible to save the output mask that SIENA uses to calculate
> the
> White Matter volume from.
>
> Also can you advise what is the best way to use a mask to isolate an
> area/region of interest. I have tried BET and Registering the two
> images
> (succesful) then creating a mask from one (T1)(successful) and finally
> multiplying the binary mask by the second image (T2). I would have
> thought
> that this would produce an image containing only those areas present
> in the
> mask but with the intensity properties of the T2 image. The
> resulting image
> is patchy and has areas of light and dark, inconsistent with the
> original image.
>
> Can you possibly help with this. The ability to create masks from
> t1-w
> images and use them to select important regions on a corresponding
> T2-w
> (same subject, same time-point) is an important aspect of the
> analysis I am
> trying to do
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