you will need to run mri_annotation2label and specify the output to be an annotation file instead of a segmentation. Then you will have to run mri_aparc2aseg, specifying your lobes annotation as well as --labelwm (look in the recon-all.log file for an example of how wmparc.mgz is created). Then run mri_segstats (you can also get an example from the recon-all.log file). doug
On 5/27/13 5:53 PM, Gonzalo Rojas Costa wrote: > Hi: > > I used the following commands to get the cortical volume per each lobe: > > mri_annotation2label --subject OAS1_0001_MR1 --hemi rh --lobesStrict > lobulos --seg lobulos --stat lobulos > mri_annotation2label --subject OAS1_0001_MR1 --hemi lh --lobesStrict > lobulos --seg lobulos --stat lobulos > mris_anatomical_stats -a lobulos -f OAS1_0001_MR1_lobulos_rh -b OAS1_0001_MR1 > rh > mris_anatomical_stats -a lobulos -f OAS1_0001_MR1_lobulos_lh -b OAS1_0001_MR1 > lh > > Which commands (sintaxis) must I use to compute the white matter > volume per each lobe ?... I tested the mri_aparc2aseg and mri_segstats > commans with different options, but I couldn't get the volume that I > need... > > Sincerely, > > > -- > Gonzalo Rojas Costa > Laboratory for Advanced Medical Image Processing > Department of Radiology > Clínica las Condes > Lo Fontecilla 441, Las Condes, Santiago, Chile. > Tel: 56-2-2105170 > Cel: 56-9-97771785 > www.clc.cl > > _______________________________________________ > 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 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.
