yes I looked at mri_glmfit-sim -- help it says: --sim-sign sign : <abs>,pos,neg
and: 6. Select the threshold sign (--sim-sign). This is the sign of the threshold used to create the clusters for cluster-wise correction of multiple comparisons. Options are abs (unsigned), pos (positive), and neg (negative). freesurfer wiki says: --sim-sign sign sign is either abs (default), pos, or neg. pos/neg tell mri_glmfit to perform a one-tailed test. In this case, the contrast matrix can only have one row. we wanted to see all cluster, positvei or negative. should we be selecting "abs" for the sign? Jon ________________________________________ From: freesurfer-boun...@nmr.mgh.harvard.edu <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Douglas N Greve <gr...@nmr.mgh.harvard.edu> Sent: Monday, November 24, 2014 11:02 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_glmfit-sim sim-sign Have you looked at mri_glmfit-sim --help On 11/21/2014 01:51 PM, Jon Alan Wieser wrote: > > > hi > > please explain the differece between --sim-sign abs, neg, and pos > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
