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Many thanks John. In fact, I also have a side-question regarding programming SPM. I would prefer to use m file to control SPM rather than pushing buttons especially when I have tones of images. E.g. how could I use m file to control SPM for spatial normalization? Both write & estimate + write only. Many thanks indeed, Edward On Fri, Jun 6, 2008 at 02:22, John Ashburner <[log in to unmask]> wrote: > > > So are you saying DARTEL might work if I could somehow segment my FA maps > > into WM and GM images (e.g. in analyze format)? > > That's the case at the moment. > > > > > If you don't mind, could you be more specific about what sort of extra > > coding I need to program to get DARTEL work on animal brain? Or are there > > any way to "make up" my images, .e.g. deliberately scale up the images or > > change manually the voxel size in the header to match that of human > brain? > > If you can scale them up by the right amount, then that may do the trick. > Alternatively, various adjustments to the regularisation (and smoothing) > settings may help. > > Best regards, > -John > > > On Thu, Jun 5, 2008 at 7:12 PM, John Ashburner <[log in to unmask]> > > > > wrote: > > > This isn't going to work. DARTEL works with segmented images, so if > you > > > had > > > images of GM and WM, then you may have a better chance. Also the > > > settings are such that smoothing etc is all set up for human-sized > > > brains. To work with other types of brains, you'll need to do (or have > > > someone else do) a bit > > > more extra coding. > > > > > > Best regards, > > > -John > > > > > > On Thursday 05 June 2008 08:35, Edward Hui wrote: > > > > Hi Everyone, > > > > > > > > I should also mention that I do not have any priors. I also do not > have > > > > a template space defined. > > > > > > > > Before I push button for DARTEL, I have series of affined transformed > > > > FA map of 5 rats. Then I wanted to put all these registered/warped FA > > > > maps into DARTEL to generate a FA rat template. > > > > > > > > However, it did not seem to work as I mentioned before where I have > > > > > > really > > > > > > > blurry generated templates. > > > > > > > > Any help would be appreciated again and thank you. > > > > > > > > Edward > >