you could just draw dots in the middle of the activated region I guess On Thu, 10 Sep 2009 benjamin.d...@yale.edu wrote:
> > Hi, > > The surface I got from MNI152 looks pretty good. > > I had tried to do what you're describing--I made 3x3x3 voxel cubes around > each > peak coordinate in the volume, and then viewed this in tksurfer. I've > attached > two images of the results from this, which hopefully will be successfully > sent > to the mailing list (red areas are from studies of theory of mind, blue areas > are from studies of biological motion perception, purple is overlap, and an > activation from the present study is outlined in black; the purple and black > parts were drawn by hand in Photoshop). You can also see the surface derived > from MNI152 in these images. This is OK, but I don't really like how messy > the > maps look, which seems inevitable with this approach. Thus, I was wondering > whether it would be possible to get the locations of each coordinate on > surface > space by some other means, and then simply hand-draw a dot at these > locations, > to present the meta-analysis results on an inflated surface but in a > nicer-looking way. Cheers, > > Ben > > Quoting Bruce Fischl <fis...@nmr.mgh.harvard.edu>: > >> Hi Ben, >> >> I would be pretty surprised if you can get a reasonable surface from the >> MNI152. I would have thought it was too blurry to distinguish many of the >> gyri from one another. >> >> That said, if you do have one, you can make labels in the volume and sample >> them onto the surface with tksurfer by just loading them. >> >> cheers, >> Bruce >> >> On Tue, 8 Sep 2009 benjamin.d...@yale.edu wrote: >> >>> >>> Hi, >>> >>> I didn't generated the surface myself (a technician in my lab did), but I >>> imagine it entailed the same process as for a subject, just using the >>> MNI152 >>> brain instead of a single individual's anatomical image. I'm hoping to >>> find >>> the location on this surface of several peak coordinates from past >>> studies, so >>> that I can present the results of an informal meta-analysis by drawing >>> dots (or >>> some such) at these locations on an image of the surface. Thanks, >>> >>> Ben >>> >>> Quoting Bruce Fischl <fis...@nmr.mgh.harvard.edu>: >>> >>>> Hi Ben, >>>> >>>> I'm still confused. How do you get a surface from an MNI average? Or is >>>> it from the colin dataset? Can you tell us a bit more about what you are >>>> trying to do so we can see if we can help? >>>> >>>> cheers, >>>> Bruce >>>> On Tue, 8 Sep 2009 benjamin.d...@yale.edu wrote: >>>> >>>>> >>>>> Hi, >>>>> >>>>> The surface isn't from an individual subject, but generated from MNI >>>>> space >>>>> itself. What exactly do you mean by sample it onto the surface? I >>>>> could make >>>>> an image file with value one at the coordinate of interest and zero >>>>> elsewhere, >>>>> and then overlay it on surface space and see where it lies, but it would >>>>> be >>>>> rather tedious to do this for each of the coordinates I'm interested in >>>>> (about >>>>> 30), so I'm wondering if there is a faster way. Granted, some of them >>>>> may not >>>>> lie on cortical surface. >>>>> >>>>> Ben >>>>> >>>>> Quoting Bruce Fischl <fis...@nmr.mgh.harvard.edu>: >>>>> >>>>>> Hi Ben, >>>>>> >>>>>> any given MNI coordinate may or may not be on the surface of a subject. >>>>>> You can convert it to individual subject space then sample it onto the >>>>>> surface. >>>>>> >>>>>> cheers, >>>>>> Bruce >>>>>> On Tue, 8 Sep 2009 benjamin.d...@yale.edu wrote: >>>>>> >>>>>>> >>>>>>> Hi, >>>>>>> >>>>>>> I'm wondering how to convert a single voxel coordinate in 2mm MNI152 >>>>>>> space to a >>>>>>> location on a cortical surface representation of MNI space generated >>>>>>> by >>>>>>> Freesurfer. My broader goal is to present a set of coordinates >>>>>>> collected for a >>>>>>> meta-analysis on surface space. Thanks, >>>>>>> >>>>>>> Ben Deen >>>>>>> Department of Psychology, Yale University >>>>>>> _______________________________________________ >>>>>>> Freesurfer mailing list >>>>>>> Freesurfer@nmr.mgh.harvard.edu >>>>>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>>>>>> >>>>>>> >>>>>>> >>>>>> >>>>> >>>>> >>>>> >>>>> >>>> >>> >>> >>> >>> >> > > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
