Do you mind my asking why you want to view your t-test result on F99, when you have it registered to 112RM-SL? Why not use the 112RM-SL mean underlay?
Is this just for visualization, or is there some analysis you want to do? It sounds like you need a volumetric registration between the 112RM-SL anatomical volume and the F99 volume. It is possible that Donald McLaren has already computed one. The F99 volume in the old 2006 tutorial was in AFNI format. If that is the volume you want, I converted it to NIFTI: http://brainmap.wustl.edu/pub/donna/ATLASES/MONKEY/Macaque.F99UA1.LR.03-11.nii login pub password download If you mean a different F99 volume, then point me to your source. If you do end up computing a volumetric registration between these atlases, then make sure your versions match in terms of what is or is not stripped (e.g., neither has had eyes, hindbrain, or other structures removed). Again, I would not be surprised if Donald McLaren has done this already. On Jul 21, 2014, at 8:58 PM, [email protected] wrote: > Hi, Donna! > Many thanks for your explanation. > To be correct, the 'individual volume space' shall be 'group volume > space', I don't known if the expression is appropriate. In tbss, I register > FA of each monkey to the best target (selected by tbss_2_reg -n). > The format of my 2 sample T test result is *.nii.gz. With Flirt of > FSL, I have ever registered the result to 112RM-SL, which is also of the > format of *.nii.gz. > Now, I want to register the result to F99 volume. But caret seems to > have a very different file format, I don't know which fle set as reference in > registration. > > > ChrisTang > [email protected] > > ???????? Donna Dierker > ?????????? 2014-07-21 23:34 > ???????? Caret, SureFit, and SuMS software users > ?????? Re: [caret-users] How to load my own file by caret? > Hi Chris, > > See inline replies below. > > Donna > > > On Jul 19, 2014, at 10:18 PM, ?????? <[email protected]> wrote: > > > Hi, everyone! > > > > I process my monkey dti data on fsl, and have got 2 sample T > > test result on individual volume space. > > You say individual volume space. Does this mean the data is for a single > monkey? I guess I'm used to thinking two sample t-test is for two groups, > but I guess not necessarily. > > > I want to load my own result file as an overlay by caret and > > set volume_F99 as underlay, so that I can estimate the brain areal of > > significant. > > You must use something like FSL's flirt or fnirt to register your > individual's anatomical scan (T1 or T2) to the F99 anatomical scan. I assume > your two sample t-test results are already in the same space as the T1 or T2. > If so, then apply that warp to your two sample t-test results. > > Doing this will let you view your test results overlaid on F99, but it won't > say anything about significance. FSL's randomise should have said something > about this when you ran the two sample t-test. You can view these results in > fslview, too. > > > I know how to load a file and set it as an overlay, but I don't > > know how to register it to F99 before that. > > You need a tool that does volumetric registration (e.g., FSL's flirt or > fnirt). There are many others out there as well. > > > How can I realize that? > > > > > > With thanks, ChrisTang > > _______________________________________________ > > 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 > > -- > This message has been scanned for viruses and > dangerous content by MailScanner, and is > believed to be clean. > > > -- > This message has been scanned for viruses and > dangerous content by MailScanner, and is > believed to be clean. _______________________________________________ > 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
