You can adjust overlay thresholds in Configure Overlay window. Ruopeng
On Oct 6, 2022, at 10:49 AM, Jun Yeon Won <wo...@umd.edu<mailto:wo...@umd.edu>> wrote: External Email - Use Caution Dear Freesurfer experts, I am running a linear regression analysis and found a significant result showing below (cache.th20.abs.sig.cluster.summary file). <image.png> I ran the below script to get this result. Right hemisphere was focused for this analysis. mri_glmfit-sim --glmdir rh.thickness.10.glmdir \ --cache 2 abs \ --cwp 0.05 But, when visualizing the cache.th20.abs.sig.cluster.mgh file, it shows below - the hemisphere is in yellow. <image.png> The below is a visualization of sig.mgh. The underlay should be gray but I am not sure why the underlay looks yellow when overlaying the thresholded result. <image.png> I saw somebody posted the same issue here (MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg46328.html<https://secure-web.cisco.com/1OHcN_bRSEDk0roNAjIAfufCwrh4xf7rzgQtoclY3flDVpCe2znW_Z-NEpNRC5ahFScfL8n7RZ7746EG5EibldfK0DyeuD8DOWxlEyzUiN6n_d2y4MRqLtRR8U2w2JQKD1dWyZjSMMQFhQKdnQGw_18koHPTGIRMmENF2G45P9aleWGnIh9S5DkSuIB8fqjPlWZZf9mEfzCdZl1dfoU5zRunt_p6sTDDJbI1pdAK_fiffsZyrD7IoVFSicGxBcz_6P8d2ROKxTtCbnNCmdL3Cw_CbU505e2Yr2rrdrRUWeHs1bWHNGTWzCNfcxGeiA2Zd/https%3A%2F%2Fwww.mail-archive.com%2Ffreesurfer%40nmr.mgh.harvard.edu%2Fmsg46328.html>), but I was not able to find the solution from here. Could you please let me know what is an issue and how to resolve this? Best, Jun _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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