Yes, when looking at the corrected images, the Threshold Min because the clusterwise threshold. So if you want to see only clusters that have a clusterwise p<.05, set that threshold to 1.3
doug On 01/28/2014 02:24 PM, Natasha Haris wrote: > The clusterwise simulation runs with a p<0.05 threshold value and a > blob appears. However, am I supposed to enter this threshold value > corresponding to p<0.05 (namely 1.3) into the box labeled threshold min= ? > > > On Mon, Jan 27, 2014 at 8:43 AM, Douglas N Greve > <gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>> wrote: > > > On 01/24/2014 11:54 AM, Natasha Haris wrote: > > Dear Freesurfers, > > > > I am slightly confused about the monte carlo simulation. > > > > First off, I only find a blob when I run the p<0.05 threshold > level and don't see anything else when I run simulations with p > less than that. What does this mean? > Which threshold level? clusterforming/voxelwise or clusterwise? If > clusterwise, then it just means that you have a cluster whose p > value is > just under .05 so you lose it by going to a more stringent threshold. > > > > Additionally, when I click on any question of interest after > running this p<0.05 simulation (for ex. "Does the average > thickness, accounting for Group, differ between male and female?" > I get the same blobs that I found before I ran this precomputed > simulation. Is the simulation not running correctly? Am I supposed > to enter this threshold value (1.3) into the area marked Threshold > min= and max=5. > Are you sure it is exactly the same? Look to see if there are some > very > small blobs that disappear. Otherwise, it may be that the blobs > you have > are all significant. > > > > Thank you for your help! > > Natasha > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > <mailto: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 <mailto:gr...@nmr.mgh.harvard.edu> > Phone Number: 617-724-2358 <tel:617-724-2358> > Fax: 617-726-7422 <tel:617-726-7422> > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> > FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 > www.nmr.mgh.harvard.edu/facility/filedrop/index.html > <http://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 <mailto: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. > > -- 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
