Ah, good point. I was thinking more of the options where other
programs were run _before_ bet2 as opposed to _after_.
It _might_ be good enough to run bet2 with the mesh output option
turned on, using as input the brain-extracted output from the first
run of bet with the -S option. ??
Cheers.
On 20 Jan 2009, at 18:11, Marc Lalancette wrote:
> Thanks for your prompt reply.
>
>> I suspect that for you the easiest thing
>> would be to amend the -S option so that it gave the surface outputs
>> you need, and then run the betsurf second-stage stuff separately
>> afterwards."
>
> I looked at the script, but I don't know how to do that. The -S
> option
> first runs bet2, then applies corrections to the masks with fslmaths
> calls.
> If I add the option to output the surface meshes in the bet2 call, I
> would
> get the same mesh as without the -S option.
>
> Is there a tool I can use to convert a mask to a mesh directly? Or
> is that
> code only in bet2?
>
> Cheers,
> Marc Lalancette
>
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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)
[log in to unmask] http://www.fmrib.ox.ac.uk/~steve
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