I do not have Freesurfer since I only have access to PCs right now. I am also having difficulty finding the tutorials and this is my first experience with caret.
Cody On Tue, Jun 28, 2016 at 1:57 PM, Ting-Yu Chang <taiwan.chan...@gmail.com> wrote: > Hi Donna, > > Thanks for your reply and help. I segmented our macaque volume data using > SureFit, not using FreeSurfer. Can I do registration by these datasets? or > if not, could you or anyone please upload the datasets which can register > individual SureFit segmentation with F99 atlas? > > Thanks very much, > TingYu > > On Tue, Jun 28, 2016 at 1:25 PM, Donna Dierker <do...@brainvis.wustl.edu> > wrote: > >> It sure would be nice if sumsdb were working right now, but it's not, and >> I have no quick-fix for getting it to work (though we are discussing ideas). >> >> Meanwhile, I'd like to narrow down which F99 individual to F99 >> registration dataset you were looking for. If you segmented your monkey's >> brain using Freesurfer, then maybe archives in this directory might be >> helpful: >> >> http://brainmap.wustl.edu/pub/donna/ATLASES/MONKEY/ >> login pub >> password download >> >> There was this document: >> >> >> http://brainmap.wustl.edu/pub/donna/ATLASES/MONKEY/FS-to-F99_Tutorial_Sept10.doc >> (same login/password) >> >> I had these in my download directory, though there is no guarantee they >> are the latest/greatest: >> >> -rw------- 1 donna velab 10272560 Feb 7 2014 FS-to-F99_Aug10.zip >> -rw-r--r-- 1 donna velab 10114922 Apr 3 2014 >> Figs-8-10_architectonic_compare.74k_f99.zip >> -rw-r--r-- 1 donna velab 7797951 Apr 3 2014 >> Figs-3_4_register-F99-with-Chip.R.74k_f99.zip >> -rw-r--r-- 1 donna velab 4729026 Apr 3 2014 >> Fig-1A_C_register-F99-with-Chip.R.74k_f99.zip >> >> I'm cc'ing Chad Donahue, who is a grad student in our lab who does >> primate registration, among other things. >> >> I believe these datasets were the ones cited in this paper: >> >> Van Essen, D.C., Glasser, M.F., Dierker, D. and Harwell, J. (2011) >> Cortical parcellations of the Macaque monkey analyzed on surface-based >> atlases. Cerebral Cortex doi: 10.1093/cercor/bhr290. >> >> Ting-Gu and Cody: Confirm you have Freesurfer segmentations for your >> monkeys. >> >> Chad: Comment on any later/greater docs/datasets/methods for registering >> monkeys, if they're ready for public use. >> >> Everyone else: Speak up if you have versions of these datasets you >> downloaded from sumsdb. I'm not 100% certain mine are final, but p>.8. >> >> >> On Jun 27, 2016, at 6:58 PM, Cody Sarrazin <codysarra...@gmail.com> >> wrote: >> >> > I actually need these files as well. >> > >> > Cody >> > >> > On Mon, Jun 27, 2016 at 3:33 PM, Ting-Yu Chang < >> taiwan.chan...@gmail.com> wrote: >> > Hello all, >> > >> > Recently, the website of SumsDB is unavailable so that we can’t find >> atlases we are looking for. We need data files to register individual scans >> with the standard atlas. Could you help us to fix the problem of website? >> or could you please send me the Macaque F99 atlas datasets for registration >> with individual data? We would also like to request the reference for >> landmarks. >> > >> > Thanks, >> > >> > Ting-Yu >> > >> > >> > >> > >> > >> > _______________________________________________ >> > caret-users mailing list >> > caret-users@brainvis.wustl.edu >> > http://brainvis.wustl.edu/mailman/listinfo/caret-users >> > >> > >> > _______________________________________________ >> > caret-users mailing list >> > caret-users@brainvis.wustl.edu >> > http://brainvis.wustl.edu/mailman/listinfo/caret-users >> >> >> _______________________________________________ >> caret-users mailing list >> caret-users@brainvis.wustl.edu >> http://brainvis.wustl.edu/mailman/listinfo/caret-users >> > > > > -- > -- > Ting-Yu Chang > University of Wisconsin-Madison > Physiology Graduate Training Program > 1-608-335-1628 > tchan...@wisc.edu > 張廷宇 > +886-919-058-196 > taiwan.chan...@gmail.com > > > > > _______________________________________________ > caret-users mailing list > caret-users@brainvis.wustl.edu > http://brainvis.wustl.edu/mailman/listinfo/caret-users > >
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