On 07/03/2014 08:01 PM, June k. wrote: > Dear Douglas, > > Thank you for your advice. > It works like magic. > I have one more question. > In qdec gui, I found some small areas in two-group comparision with > two discrete variables (diagnosis and gender) and two nuisance > variables (ICV, age). > Then processed monte-carlo simulation with 1.3 abs. > ->Finally got three significant areas Is this a problem? > > Now your code gave me the mean thickness of three areas. > However, When I run stats with SPSS, (independent group t-test, ANCOVA > using GLM multivariate), the p-value is far from significant (.05). > > Is there any mistake, or I ran wrong stats with SPSS? You have to make sure to use exactly the same model. I don't know how to do this in SPSS. I can step you through the process in matlab. doug > > Again, Thanks for your advice : ) > -June > > On Jul 2, 2014, at 11:28 PM, Douglas N Greve > <gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>> wrote: > >> >> In QDEC, there is not a way to do this, but you can do it from the >> command line. If you cd to where the qdec output is (it might be a >> folder called Untitled in your $SUBJECTS_DIR), then run >> >> mri_glmfit-sim --glmdir Untitled --cwpvalthresh .05 --cache 1.3 abs >> --2spaces >> >> This will only take a minute or so to run. In each contrast folder, >> there will be a file called >> cache.th13.abs.sig.cluster.summary with a list of clusters and a file >> called cache.th13.abs.y.ocn.dat which >> will have a column for each cluster and a row for each subject. You can >> compute statistics from this. >> >> Note that the clusters found this way should be the same as with qdec, >> but might not be if the threshold parameters are not identical. >> >> doug >> >> >> >> >> On 07/02/2014 04:14 AM, June k. wrote: >>> Dear surfers. >>> I’ve analyzed 2 group comparison data using qdec gui. >>> I got some significant clusters after Monte-carlo simulation with >>> 1.3, absolute. >>> However, I have no idea to get thickness value of each group in the >>> significant areas. >>> >>> Is there any way to extract mean (and S.D. if possible) thickness of >>> the area shown in gui analysis after monte-carlo simulation? >>> >>> -Sincerely, June. >>> >>> >>> >>> >>> _______________________________________________ >>> 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 >> 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 >> <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. > > > > _______________________________________________ > 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
