Sterling Johnson's lab here at UW-Madison is working on creating a group averaged macaque atlas for volume registration. However, we aren't quite ready to make them public as there are a few bugs still being worked out. We have been using SPM to coregister T2W and T1W images. I'd assume FSL-FLIRT would have similar results.
The best approach might be as follows: 1) Register T2W to T1W 2) Register T1W to F99 (downloadable from SUMS); if you need .img format there are many tools available to convert HEAD/BRIK to hdr/img. I believe you can load them in CARET and save them as an img file, although I might be wrong. 3) Multiple the 2 transforms to get the T2W to F99 brain; Apply the transform using FSL. Hope this helps. Best Regards, Donald McLaren ===================== D.G. McLaren University of Wisconsin - Madison Neuroscience Training Program Tel: (773) 406 2464 ===================== This e-mail contains CONFIDENTIAL INFORMATION which may contain PROTECTED HEALTHCARE INFORMATION and may also be LEGALLY PRIVILEGED and which is intended only for the use of the individual or entity named above. If the reader of the e-mail is not the intended recipient or the employee or agent responsible for delivering it to the intended recipient, you are hereby notified that you are in possession of confidential and privileged information. Any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited and may be unlawful. If you have received this e-mail unintentionally, please immediately notify the sender via telephone at (773) 406 2464 or email. ----- Original Message ----- From: Hamied Haroon <[EMAIL PROTECTED]> Date: Monday, March 12, 2007 10:31 am Subject: [caret-users] Registering Individual Macaque to F99 template To: firstname.lastname@example.org > Hello, > > > > I'm a completely fresh novice learning how to use Caret 5.5. > > > > I was wondering if anyone could give me some advice on the following, > please... > > > > I have a single whole-brain T2-weighted structural MRI dataset acquired > in a post-mortem macaque brain. My dataset is in Analyze format. > > > > How can I register/deform my individual macaque dataset to the F99 > dataset so that I can then parcellate the temporal lobe according to the > probabilistic atlases available in CARET_TUTORIAL_SEPT06\MACAQUE? > > > > If I should use FLIRT in FSL to do the registration then > > how can I get the F99 dataset in Analyze-format to do the registration, > and > > what options are suggested to be chosen in FLIRT to get the best > registration results? > > > > I look forward to receiving your kind advice. > > > > Thanking you in anticipation. > > > > Hamied > > > > ________________________________________________ > > > > Hamied Ahmad Haroon PhD AMInstP > > Research Associate in MR Neuroimaging > > Division of Imaging Science and Biomedical Engineering > > Faculty of Medical and Human Sciences > > The University of Manchester > > Room G.603 Stopford Building, Oxford Road, > > Manchester M13 9PT > > England, United Kingdom > > Tel: +44 (0)161 275 6871 Fax: +44 (0)161 275 5145 > > ________________________________________________ > > > > > > > > _______________________________________________ > caret-users mailing list > email@example.com > http://pulvinar.wustl.edu/mailman/listinfo/caret-users