Perfect, it works thanks!
On Wed, Mar 5, 2014 at 11:35 AM, Douglas N Greve <gr...@nmr.mgh.harvard.edu>wrote: > sorry, it is --slabel > btw, there is documentation. If you run it without options it gives you a > list of arguments as well as examples > doug > > On 03/05/2014 11:32 AM, krista kelly wrote: > >> Thanks Doug, but when I try this I get the following error: Option >> --label unknown >> >> >> On Wed, Mar 5, 2014 at 11:21 AM, Douglas N Greve < >> gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>> wrote: >> >> >> try >> mri_segstats --label-thresh .5 --label BV20 lh V1.thresh.label --i >> $SUBJECTS_DIR/BV20/surf/lh.pial_lgi --sum lh.V1.thresh.label.stats >> >> On 03/05/2014 11:15 AM, krista kelly wrote: >> > Hello, >> > >> > I would like to extract the pial_lgi data from Freesurfer's >> V1.thresh >> > labels but can't quite figure it out. I've tried adapting the >> commands >> > from the LGI Freesurfer tutorial as such: >> > >> > mri_segstats --label-thresh BV20 lh V1.thresh.label --i >> > $SUBJECTS_DIR/BV20/surf/lh.pial_lgi --sum lh.V1.thresh.label.stats >> > >> > I've also tried >> > >> > mris_anatomical_stats -l lh.V1.thresh.label -f >> > BV20/stats/lh.V1.thresh.label.stats BV20 lh pial_lgi >> > >> > but I've had no luck with either. >> > >> > I would appreciate any help! >> > >> > Thanks, >> > Krista >> > >> > >> > _______________________________________________ >> > 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/ > >
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