External Email - Use Caution Is there an argument to put in a custom LUT? I don’t see it in the options for mri_surf2volseg. I’m assuming I have to put in average/colortable_vpnl.txt and average/colortable_BA.txt
Get Outlook for iOS<https://secure-web.cisco.com/1TolOmCVXnfUxV402Flx2lZ_4NgimOtRJ5HqRmB0MkHN3pv_zWs9OUBtwdc7aXycd_68LRgjoMWoK9eSC33B3ipLD24YreBbGWRfWjRtrN_XJc7PFc1wRamjc4_1OaaEdPfczupHcvTZnSUN0jvPhyuJKTfQxq30Epgqa0S8QJ9OE6oe--pByQMI21QOe8trJf6QZx1RtajhkCARbHScEwOVOZ4et5YFudxu-5ewtfG-NcJ0sfCDAKRWLEvTzyssh_qFrWiaXLR4mo8D-j_eMx345fvg_2BW40oMYCdeqgoElPrB1GMUgC7ZirCIpVLQF/https%3A%2F%2Faka.ms%2Fo0ukef> ________________________________ From: freesurfer-boun...@nmr.mgh.harvard.edu <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Douglas N. Greve <dgr...@mgh.harvard.edu> Sent: Sunday, February 13, 2022 10:42:41 AM To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu> Subject: [External] Re: [Freesurfer] [External] Re: white matter measurements for labels/annotations You'll have to create an annotation first (maybe with mris_label2annot), then use mri_surf2volseg to create the segmentation. Look at the command line to create wmparc.mgz On 2/4/2022 10:03 AM, Zeng, Victor (BIDMC - Keshavan - Psychiatry) wrote: External Email - Use Caution Yes but instead of DKT regions, it would have brodmann area for example Get Outlook for iOS<https://secure-web.cisco.com/1eAC_sZNKcMaGtet6rH2PGu5G4O6IM7T1xgyPg2lYkiuXiFocr6UaRrTBB2_ccJP-zaT8inBrpb90iVsK_zmleFo9alxcZti_f5NgVxAhV5LLjJzO6irIEBSRaxyclZIVpY_50y5rwTTEGXsYlXuFciCgroh_moa4qfm2jFNvDt1WC4idPTmL952Zlvb4zpLFXGhFCJVLU7KhQM5K99PUeyqbVLlDIGdWy-9ge9GBzOlBEgtQ6Q_g0rd6tlNn9ZCV86tNmIghaJcI4QkpBniukWOfeGk8Q-3Cm5RqhdeYzMDdABM0_rLCcz52fCV4nm7r/https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2F%2Fsecure-web.cisco.com%2F1p6IJUtHw7r98MRJZmstZAvHtX_wW2AIUBNiE1Ru4Nl56H63etcrTRbrwjm6oMeMb-WurHyDiVOtflPhIal4sLy4qFOGC_doqsiEF-fitmdTOrl0QSvZrm9sUiVA7os-H0BRN_bxcPExO442M5gi_aPaqX5M1z5isB4u_sAa50FHkMZBAhm2wf47PZ8XajrsLRev2Uz1YiZfIi5k9ZcNMBOUmMNoYlsIPdP1kPpHOEblutnsmOOCxVPOveRk0Ba8C4JJgQYxhF1SbqdTbu3NPGmFzg84r5IsXt0ZwIrwiYBP1yC3hDN6sMdhfyCBg5T5ch-leaKBBZynU6kU0T4NFhg%2Fhttps%2A3A%2A2F%2A2Faka.ms%2A2Fo0ukef__%3BJSUlJQ%21%21CvMGjuU%21qQludDg84WHDNf1EPR3eTwQ9VILKgcy3wTRRING4QpnfGcmrvFbDuTPVe2A6WXdytd3a3w%24> ________________________________ From: freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu> <freesurfer-boun...@nmr.mgh.harvard.edu><mailto:freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Douglas N. Greve <dgr...@mgh.harvard.edu><mailto:dgr...@mgh.harvard.edu> Sent: Friday, February 4, 2022 7:10:17 AM To: freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu> <freesurfer@nmr.mgh.harvard.edu><mailto:freesurfer@nmr.mgh.harvard.edu> Subject: [External] Re: [Freesurfer] white matter measurements for labels/annotations Do you mean something like wmparc.mgz and wmparc.stats? On 2/1/2022 1:10 AM, Zeng, Victor (BIDMC - Keshavan - Psychiatry) wrote: External Email - Use Caution Hi, is it possible to extract white matter volume estimations for labels/annotations? I am specifically wondering about the brodmann atlas and the stanford atlas that is already included in latest FS. 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