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Thanks. Generally, I agree that is a good idea. However, I am concerned about using a typical scheme because in my hi-res fmri study, the adjacent regions I am interested in are smaller than the typical smoothing kernel. Using even 4mm smoothing kernel on the whole image would mean that activation in region X is due to adjacent sub-region y...Further, without smoothing, the data is noisy. - Josh On Mon, Oct 1, 2012 at 1:52 PM, Marenco, Stefano (NIH/NIMH) [E] < [log in to unmask]> wrote: > Not sure ….I would apply the same procedure to the whole image… **** > > ** ** > > *Stefano Marenco, MD* > > NIMH/CBDB**** > > 10 Center Drive, Bldg 10 room 3C103**** > > Bethesda MD 20892**** > > Tel 301 435-8964**** > > Fax 301 480-7795**** > > Email: [log in to unmask]**** > > ** ** > > *From:* Joshua Lee [mailto:[log in to unmask]] > *Sent:* Monday, October 01, 2012 4:15 PM > *To:* [log in to unmask] > *Subject:* Re: [FSL] Anistropic Spatial Smoothing Kernels**** > > ** ** > > Hey thanks! > Might I ask another question? > > If one were to apply a standard spatial smoothing kernel to just > subsections of a functional image through the use of masks (e.g. use a mask > to Gaussiansmooth just one subfield of the hippocampus), would the > resulting smoothed image be problematic for use in analyses?**** > > Joshua**** > > ** ** > > On Mon, Oct 1, 2012 at 8:02 AM, Marenco, Stefano (NIH/NIMH) [E] < > [log in to unmask]> wrote:**** > > Afni should have something to that effect….**** > > **** > > *Stefano Marenco, MD***** > > NIMH/CBDB**** > > 10 Center Drive, Bldg 10 room 3C103**** > > Bethesda MD 20892**** > > Tel 301 435-8964**** > > Fax 301 480-7795**** > > Email: [log in to unmask]**** > > **** > > *From:* Joshua Lee [mailto:[log in to unmask]] > *Sent:* Friday, September 28, 2012 4:15 PM > *To:* [log in to unmask] > *Subject:* [FSL] Anistropic Spatial Smoothing Kernels**** > > **** > > Hi all, > I am interested in using an anistropic kernel to spatially smooth > high-resolution functional data. For example I'd want a 8mm FWHM in the z > direction, but only 2 mm in z and y directions. In the structure I am > examining, this appears to be a good way of increasing SNR while retaining > spatial localization of activations to anatomical structures. > > Has anyone done something like this before, and if so might I profitably > use fslmaths to do so? > **** > > -**** > > Josh**** > > **** > > ** ** >