Hi - you can use the cluster program to separate out disconnected
clusters from each other, for example saving the masks image out as a
similar image but where each cluster has a different integer value -
then you can use fslmaths to isolate one at a time to use in your
volume calculations.
Cheers.
On 11 Jun 2009, at 10:22, Colm Connolly wrote:
> Hi everybody,
>
> I've got a complete VBM analysis and I've got some nice regions
> showing differences.
> I then clustered and ordered them using
> cluster --in=comp_tstat4_corrected.nii.gz --thresh=0.05 -o
> comp_tstat4_ordered
> which yields a file containing several regions depending on the tstat.
>
> What I'd like to do now is extract the GM volume per subject per roi.
>
> I've been trying to use fslstats to do this but it seems not to do
> exactly what I want.
>
> fslstats comp_GM_mod_merg_s3.nii.gz -k comp_tstat3_ordered.nii.gz -v
> seems to aggregate across all ROIs in the mask.
>
> The previous messages to the list that i could find don't seem to
> address the issue of multiple ROIs per mask.
>
> Is there a way to get a table where the rows are subjects and the
> columns are the GM volumes in each ROI in a mask?
>
> Regards,
> --
> Dr Colm G. Connolly
> School of Psychology and Institute of Neuroscience
> The Lloyd Building
> University of Dublin
> Trinity College, Dublin 2, Éire
> Fax: +353-1-671-3183
>
> Please note that electronic mail to, from or within the Trinity
> College Dublin, may be the
> subject of a request under the Freedom of Information Act.
>
>
>
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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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