Hi - yes, this is straightforward with the "cluster" program, for
example:
cluster --in=tbss_maxc_tstat1 --thresh=0.95 --oindex=clusterindex --
olmax=clustermax.txt --osize=clustersize > clustertable.txt
note that in the cluster table "Z" refers to the units of the input
data - in this case p-values.
Cheers, Steve.
On 24 Aug 2006, at 01:30, Brian wrote:
> Dear FSL Users,
>
> I have successfully completed a TBSS study with FA and non-FA
> images. As
> suggested on the TBSS page, I used randomise for permuation-based
> inference.
> Each analysis produces significant clusters based on my "-c" value. My
> question is, is there a straightforward way to extract cluster
> information
> (e.g., cluster volume, MNI location of center of mass, max
> intensity) from
> the randomise output? As part of this, I would like to order the
> cluster
> mask by largest to smallest cluster volume. I have tried to work
> with avwroi
> and avwmaths with no success, but have almost no experience with
> these programs.
>
> I could complete this with AFNI using 3dmerge but I would need to
> know the
> minimum cluster size and cluster connection distance in mm. Is
> there a way
> to obtain this information from the randomise output?
>
> Thanks for your time and assistance.
>
> Brian
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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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