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Hi, Forgot to mention, the reason why I said linux. Those keyboard interactions don't work on the mac (at least in my experience). Cheers, Brian > Hi, > > The segmented images are in native space (just look at the size of the > images). > There are also surface files, and these also contain coordinates > relevant > for the native space (though using an internal coordinate convention). > > Unfortunately there is no easy way to find corresponding coordinates at > the moment. It is possible to look through the vtk file to find peak > values, > then extract the vtk coordinate and convert this into a volumetric > coordinate, but it is not easy at present. Is this an important thing > to do? > You can visualise where the changes are with respect to the standard > space by viewing the standard space image planes in conjunction with > the surface results. See the FSLView documentation and the FSL course > practical on segmentation with FIRST for examples of this. > > Finally, to get the segmented image into standard space, just apply > the saved > transformation matrix (a file named *_to_std_sub.mat) using flirt with > the > -applyxfm flag, or alternatively, use the ApplyXFM GUI. > > All the best, > Mark > > > > On 9 Dec 2009, at 03:34, Zhangyuanchao wrote: > >> Hi, there, >> >> I want to know what space the subjects are in. >> >> Using FIRST, subcortical structures are segmented, Is the segmented >> subcortical structure in the subject's native space or in some >> standard space? >> What space are they in? >> >> If I get a cluster of atrophy on the surface of a subcortical >> structure, how could I obtain its volume's corresponding coordinate? >> >> How can I obtain the segmented subcortical structure in their native >> space and standard space respectively? >> >> Thanks >> >> yuanchao >> >> 好玩贺卡等你发，邮箱贺卡全新上线！ > >