Hi Heidi, I'm not sure I understand what you are trying to do. Can you elaborate? What do you mean that you do not have statistical info any more? It is unusual to smooth p-values. Probably you should apply smoothing before your analysis
On 8/9/2019 2:46 PM, Jacobs, H (NP) wrote:
External Email - Use Caution Hi all,
I created an overlay surface map of my analyses (with pvalues in log10) using R. Now I would like to smooth this map to extract clusters and I tried to use:
mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 3 --sval lh_analyses.mgh --tval lh_analyses_smoothed.mgh --cortex
This seems to work, but is there a way to also map the original values in the output surface overlay? I now have clusters that are colored yellow with no statistical information anymore.
I also tried to use: mri_surfcluster --in lh_analyses.mgh --thmin 1.3 --thmax 6 --no-adjust --subject fsaverage --fwhm 3 --sum lh_analyses_smoothed_summary --hemi lh --sign pos
But whether or not I add in the smoothing, the output is the same.
Any help would be greatly appreciated.
Thanks!
Heidi
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