Hi Aditya,
> Hi Gwen,
>
> My question was after performing randomize and
> obtaining the tstat maps, I have overlaid the tstat maps
> onto the created template image and on the MNI template.
>
> Now if I needed to calculate the volume of all the
> significant differences that I have just found, how do I do
> it? Like a number that says in the net this much volume
> difference was observed... or ... in so and so region this
> was the mean volume difference observed etc.
You can first report the regions where you found the significant differences, either by identifying them in fslview, or using the "cluster" command. With this command, you can also isolate all the clusters that are significant... This is very useful if you want to calculate the GM volume in all the subjects: you can either report the normalised GM volume per subject in each cluster using fslmeants (I think this is what I did in the 2009 paper on schizophrenia), or then multiply this normalised volume by the volume of each cluster (using fslstats -V) to get the GM volume across subjects.
Hope this makes sense,
Gwenäelle
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Gwenaëlle Douaud, PhD
FMRIB Centre, University of Oxford
John Radcliffe Hospital, Headington OX3 9DU Oxford UK
Tel: +44 (0) 1865 222 523 Fax: +44 (0) 1865 222 717
www.fmrib.ox.ac.uk/~douaud
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