David might have more squirreled away on his machine somewhere, but I couldn't find this in sumsdb or my archives.
I'm sure some labs around here -- very likely the Snyder Lab -- have used FSL's Brain Extraction Tool (BET) on the F99 atlas for various purposes, but I'm not aware that they released anything like that for public consumption. I do know from experience that the fractional intensity threshold and gradient matter. Possibly loop through several permutations and judge which combo you like best. There is a fullHead minc volume here: http://brainmap.wustl.edu/pub/donna/SAM/F99UA1.tar.gz login pub password download Bit it's 256x256x180 -- not 240. I don't think it's the most upstream volume we have, but it's the most upstream one I could find. On Sep 29, 2012, at 1:35 AM, Colin Reveley <[email protected]> wrote: > Two enquiries, one more important than the other. Less important first: > > 1) Is there a brain extracted version of the F99 scan anywhere (a reference > version)? > > I did do it myself, in fact took quite some time over it as I remember, but > maybe there is a reference version that's better. > > I want to use it for some non-linear registration research. you need to > register things that are definitely equivalent. And extracting monkey > perfectly isn't that easy. > > 2) More important thing: > > One thing I'll be doing is registering F99 to a T1 of the animal in the > attached image. That animal was, I'm told, in the same place at the same time > as F99. > > For that, I wonder if there is a copy of the entire F99 scan? > > That would have huge value to me. > > I may be quite wrong, but it's very possible the original scan was > 256x256x240 voxels and looked a lot like the attached picture. There's no > doubt F99 was acquired in a similar scanner because he's sitting up. I don't > think there are that many scanners like that. And I basically reckon it was > the same coil and same or similar sequence, but I could be totally off. > > F99 is a really good scan in terms of artefact, in addition to being an atlas > reference (as is this animal, but a different kind of atlas), so if you did > have the entire thing that would be really great. We're in the atlas business > for a bit. Sort of. F99 would be a really nice scan to have, for a bunch of > reasons. It's unlikely we'd ever want to do more than experiment with it but > obviously we'd ask if we did anything worth knowing about. > > I guess even if the scan was like that originally it's now long gone, but if > not....that would be lovely. > > many thanks, > > Colin R > > > > > <wemeetagain.png>_______________________________________________ > caret-users mailing list > [email protected] > http://brainvis.wustl.edu/mailman/listinfo/caret-users _______________________________________________ caret-users mailing list [email protected] http://brainvis.wustl.edu/mailman/listinfo/caret-users
