registration with MRI

Dear All, Recently, we have had some problems with registration using FSL. Some of the registrations, particularly with the standard brain appear to be quite poor. Jodie, Claire and Andre have done some work on this recently and found that the best combination of registrations in FSL is Initial Structural: 15 degree search, 6 DOF Main Structural: 15 degree search, 6 DOF Standard Brain: 15 degree search, 12 DOF If you have any views on this, could you let us know. We have also noticed that the brain extraction tool, which is set as default on FEAT has not always been removing the skull from the EPI images. If you have been doing FEAT analysis, I would be grateful if you could let us know whether BET has been working for you. If this hasn't been happening, it could affect your registrations. A related issue, is that although structural brain images are automatically skull stripped using BET, FLAIR images are not. However, I believe that BET may be automatically applied to FLAIR images in the near future. :-) Cheers, Tim -- Dr Tim Andrews Department of Psychology University of York York, YO10 5DD UK Tel: 44-1904-434356 Fax: 44-1904-433181 http://www-users.york.ac.uk/~ta505/ http://www.york.ac.uk/depts/psych/www/admissions/cns/