[Freesurfer] Two questions about csd (cluster simulation data)

ounts? 2) When mri_surfcluster uses a csd file to compute the cluster-wise correct p-values, how does it do that? Does it only use the maxclustsize? Or does it take other columns, such as maxsig, into account as well? Thanks! Best, Shanqing Cai ___ Fre

[Freesurfer] "Holes" in the mri_label2vol results

ot;--proj" option of mri_label2vol and this happens in both the gray- and white-matter projections. I am using FS 5.1.0. I wonder whether other people have experienced similar problems and how these holes can be gotten rid of. Thanks! Best regards, Shanqing Cai _

[Freesurfer] Tracula references

published on Tracula? I need the information for better understanding of the tool and possible citations in future publications. Thank you. Best regards, Shanqing Cai ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https

[Freesurfer] mri_glmfit weighted random effects

t be possible for me to access the source code of that particular module ("mri_glmfit") to see how the algorithm is implemented? The FreeSurfer source that used to be accessible from the ftp server (surfer.nmr.mgh.harvard.edu) is not only there for some reason. Thank you very muc

[Freesurfer] Tracula bedp error

Hi, I am running Tracula on the MIT BCS cluster. The first step "-prep" finished without error. However, during the second step "-bedp" I received the following error messages. ba3:~/STUT/tracula> trac-all -bedp -c ~/STUT/tracula/tracula.cfg INFO: SUBJECTS_DIR is /users/cais/STUT/FSDATA INFO: Dif

[Freesurfer] A question about the Freesurfer version compatibility of Tracula

5.0.0 reconstructions cause any problems that render the results unusable/not trustable? Thank you! Best, Shanqing Cai ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The