Michelle Umali wrote:
Hi Doug, I've already smoothed by 5 during preproc-sess, so does this mean I should do additional smoothing during fieldsign-sess step?
Try the additional one now to see if it fixes the map.
Also, is this the correct command to use the sphere and not the patch: fieldsign-sess -a rtopy.self.lh -fwhm 5 -sphere -s sj09
yes doug
Thanks. Michelle
Quoting Douglas N Greve greve@nmr.mgh.harvard.edu:
Try smoothing (eg, -fwhm 5) when running fieldsign-sess. You can also try using the sphere instead of the occip patch. doug
Michelle Umali wrote:
Hi Doug,
Thanks again for your advice, the heat maps look much better. However, they still do not visualize the continuous range of angles or eccentricities but rather divide it into two intervals such as red vs. blue. Is there any way to adjust the color range to make it more appropriate for this kind of data?
The heat map for the field sign data still looks speckled. I attached an image showing the heat maps for polar angle, eccentricity, and field sign, with the corresponding overlay settings.
I used 5mm smoothing.
Thank you very much, Michelle
Quoting Douglas N Greve greve@nmr.mgh.harvard.edu:
The activation looks pretty reasonable. As you point out, the angles are a mess. How did you set the color scale for the angles? You should leave it as a heat scale (if you're using tksurfer-sess). How much did you smooth?
doug
Michelle Umali wrote:
Hi Doug, Attached is a pic of the significance and angle maps for polar and eccen.
What do you think?
Thanks. Michelle
Quoting Douglas N Greve greve@nmr.mgh.harvard.edu:
what does the activation look like? Does it look right? Can you send a pic? doug
Michelle Umali wrote:
> Hi Doug, > The z-values are consistently near or greater than 4. It just > seems that the > visualization of the angles is somehow incorrect... > > Is there be anything else that I need to check? > > Thanks. > Michelle > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > >
>
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Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
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