should be something like cache.th13.abs.y.ocn.dat also, you can look in mri_glmfit-sim --help to get info about each output file
On 09/19/2014 04:47 PM, Celine Louapre wrote: > Indeed I ran mri_glmfit-sim. What file is the output of mri_segstat? > The cache.th13.abs.sig.ocn.annot contains the significant clusters it that > correct? So to get individual mean values from cluster 1 for example where > should I look? > Thanks! > Celine > > >> Have you run mri_glmfit-sim? It will create labels (ie, annotations) of >> the clusters as well as run mri_segstats to get means in each cluster >> for each subject. Try that link now >> doug >> >> On 09/18/2014 12:15 PM, Celine Louapre wrote: >>> Hi Doug and FS team >>> >>> I did glm analyses using mri_glmfit, and I was trying to plot the >>> individual values in the population for a specific significant cluster. >>> However I am not sure how to extract individual values from the entire >>> cluster. (note that the concatenated surface used as input for the glm >>> contains some 0 values that I want to exclude from the mean value of the >>> cluster). >>> Is there a way to build a label from a specific significant cluster? >>> >>> Then, I was thinking about using mri_segstats --avgwf on the 4D >>> concatenated file to get the average of the region but is there a way to >>> not include 0 values? >>> >>> And then I was also interested in getting the correlation coefficient >>> from >>> that same cluster, so maybe the script below would be helpful for that >>> but >>> I could not open it. >>> ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/fast_glm_pcc.m >>> >>> Thanks so much for your help >>> Best >>> Celine >>> >>> On 05/31/2012 06:09 AM, Knut J Bjuland wrote: >>>> Hi >>>> >>>> I am trying to calculate correlation coefficient using freesurfer GLM >>>> for associations between volumes and IQ. I found this ealier answar, >>>> but the matlab script but the link appear to be dead. >>>> >>>> http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg22648.html >>>> >>>> Best regards >>>> >>>> Knut J >>>> >>>> >>>> >>>> >>>> _______________________________________________ >>>> 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 >> >> >> > _______________________________________________ > 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.
