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yes flirt did a good job registering brains to one another-- I just picked the "best" looking mouse brain we had and used that as the template to register all the other brains too---- I am quite new to the mouse DTI field as well, so this is just what I have been playing around with. As for skull stripping-- it's possible to use BET to skull strip mouse/rat data if you play around enough with the parameters and/or crop the brain. Fortunately my animals were quite dead and we just scanned the brain only-- so no need to skull strip! david 2009/5/4 WangPing <[log in to unmask]> > david, sorry, i am not sure if I understand correctly. You mean flirt can > register different mouse brains well in your previous work? Is this a usual > way to register different mouse brains currently, sorry i do not have > experience on this? Do you need to skull-stripping the mouse brains before > applying flirt? Best, ping > ------------------------------ > Date: Mon, 4 May 2009 21:07:48 -0400 > > From: [log in to unmask] > Subject: Re: [FSL] registration/normalization for mouse brain > To: [log in to unmask] > > I have used Flirt for the majority of my transformations--- we also very > recently got FNIRT working to do nonlinear registrations, we had to tweak > things a bit ( I was happy to pass the task off to a colleague) but that > worked as well. > > david g > > > 2009/5/4 WangPing <[log in to unmask]> > > Thanks dg, are you using flirt for registration? for > inter-subject normalization, what specific tool of FSL are you using? Best, > Ping > > ------------------------------ > Date: Mon, 4 May 2009 20:59:59 -0400 > From: [log in to unmask] > Subject: Re: [FSL] registration/normalization for mouse brain > To: [log in to unmask] > > > I've used it for mouse brain data without a problem--- just have to make > sure the voxel dimensions in the header are set properly--- I had some > issues with voxels with values < 1 (like 0.250 mm) so I just made it 250, > but otherwise it seemed to work ok > > > dg > > 2009/5/4 WangPing <[log in to unmask]> > > Dear experts, > > I mainly use fsl for human brain study, I was asked to find tool for rodent > brain's registration/normalization. Just wondering if fsl can do this (I do > not have the mouse data in hand to test)? Or does anyone recommend other > tool for this purpose? > > Thanks, > Ping > > ------------------------------ > 立刻下载 MSN 保护盾，保障Messenger 安全稳定！ 现在就下载！ <http://im.live.cn/safe/> > > > > > -- > David A Gutman, M.D. Ph.D. > Department of Psychiatry & Behavioral Sciences > Emory University School of Medicine > > ------------------------------ > 更多热辣资讯尽在新版MSN首页！ 立刻访问！ <http://cn.msn.com/> > > > > > -- > David A Gutman, M.D. Ph.D. > Department of Psychiatry & Behavioral Sciences > Emory University School of Medicine > > ------------------------------ > 使用新一代 Windows Live Messenger 轻松交流和共享！ 立刻下载！ <http://www.windowslive.cn> > -- David A Gutman, M.D. Ph.D. Department of Psychiatry & Behavioral Sciences Emory University School of Medicine