Thanks for pointing me to the file and the help. I found the info I needed there fro the cache.th13.abs.y.ocn.dat file.
For the partial correlation coefficient script fast_glm_pcc.m I could not make it run however. I got this error: Error using * Inner matrix dimensions must agree. Error in fast_glm_pcc (line 28) Xc = X*C'; And also I found this info in the script WARNING: X must have a column of 1s or both X and y must have been demeaned before the glm. But I am not sure about what it means. Attached are Xg.dat and C.dat files. Thanks again for your help Celine > > > 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 > > >
Xg.dat
Description: Binary data
C.dat
Description: Binary data
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