Hi Marco, The columns correspond to the integer IDs in the --seg image, so assuming you passed in a binary mask the first column is mean over everything that isn't your ROI and the second column is the mean in your ROI.
Cheers, Michael On Wed, Feb 29, 2012 at 10:56 AM, Marco Loggia <ma...@nmr.mgh.harvard.edu>wrote: > Dear all, > > Given a series of fsaverage-registered rCBF maps, I am trying to extract > the average rCBF value from one specific region. This region, which was a > significant cluster from a volumetric (fsl) analysis, was binarized and > then converted to surface. > > When I run mri_segstats with the --avgwf I obtain two columns. Can you > please remind me which one is the average extracted from that ROI, and > what is the other column? > > Thanks! > Marco > > > > > mri_vol2surf --mov > > DMN_s1_RS1_correlates_with_ASL1_rating.gfeat/cope1.feat/cluster_mask_zstat1.nii.gz > --mni152reg --hemi rh --o > > /autofs/cluster/randy/6/users/marco/lbp/lbp_freesurfer_ASL/ASL_connectivity_SURF/rh.RS1_correlates_ASL1.mgz > > > > cd > > /autofs/cluster/randy/6/users/marco/lbp/lbp_freesurfer_ASL/ASL_connectivity_SURF > > for f in `ls *.mgz` ; do > > mri_segstats --seg $f --in > > /homes/14/marco/cluster_6/lbp/lbp_freesurfer_ASL/patients+controls/analyses/rh.lbp+ctrl.session1.asl2-asl1_projfrac-max_nopaired-diff_sm7_03mm_OCT18.mgh > --avgwf "$f"_RH_nopaired_diff.txt > done > > > nedit rh.RS1_correlates_ASL1.mgz_RH_nopaired_diff.txt & > > 38.2811 47.6476 > 40.3997 36.0856 > 42.6304 46.2465 > 44.4789 36.7066 > 69.2376 51.4098 > 66.0043 47.2098 > 34.5957 40.3854 > 36.8976 42.2028 > 38.2475 35.875 > 39.9503 37.0186 > 35.1582 36.6949 > 35.1924 38.874 > 43.4415 36.2505 > 43.3516 34.5041 > 58.3073 50.3295 > 61.8703 60.8415 > 61.1754 51.3476 > 47.9508 51.594 > 51.5809 48.2985 > 49.6545 50.974 > 62.9431 72.1211 > 54.0272 55.7234 > 35.0701 34.5995 > 37.9241 35.3844 > 37.2277 42.3105 > 38.2136 46.7896 > 45.0951 51.9831 > 45.4391 51.6242 > 46.2971 47.5424 > 44.3713 41.1725 > 37.4132 36.1166 > 36.7285 39.2947 > 44.0285 46.501 > 45.4698 50.5906 > 51.0392 48.2324 > 55.0885 50.9392 > 66.7224 67.7807 > 64.8932 68.5847 > 45.5101 45.6065 > 46.7002 45.232 > 40.6324 48.9768 > 44.3654 45.9017 > 39.4908 32.8936 > 39.5983 36.4909 > 55.9295 59.1527 > 55.6738 55.7016 > 44.7433 50.9412 > 42.6953 50.0857 > 42.4522 48.7366 > 43.5595 42.3424 > 43.9283 36.5026 > 41.9838 36.8662 > 39.9873 44.505 > 43.442 49.2243 > 57.6304 55.5628 > 53.3496 49.4215 > 43.2505 42.5797 > 43.5452 42.0694 > 50.4555 47.993 > 49.8977 49.6568 > 41.5077 42.8473 > 40.2357 42.3246 > 40.3846 39.1473 > 38.7073 41.502 > > > > ______________________ > > Marco L. Loggia, PhD > Postdoctoral Fellow, Mass General Hospital & Brigham and Women's Hospital > Harvard Medical School > > Psychiatric Neuroimaging Research Program > CNY Building 120, suite 100 > Charlestown, Massachusetts 02129 > Phone: (617) 643-7267 > Fax: (617) 643-7340 > ma...@nmr.mgh.harvard.edu > _______________________________________________ > 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. > >
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