External Email - Use Caution Hi Paul,
Not sure what command I should run when I edit the brainmask because the pial got too much. Kind regards, Rosie On Thu, Jul 8, 2021 at 6:13 PM Paul Wighton <p...@corticometrics.com> wrote: > External Email - Use Caution > > Hi Rosie, > > >> It is my first time editing wm segmentation (white matter segmentation >> errors + topological errors). >> >> I wonder if there is a good tutorial on which I could rely. >> > > There are a few tutorials that may be helpful (a full list of tutorials is > here *MailScanner has detected a possible fraud attempt from > "secure-web.cisco.com" claiming to be* > https://secure-web.cisco.com/1KKtU14lfEF2p4D2eFjLuFeNgwDDSY3YYh8tQDtHUAaGyqDmwo-Ucj5kIvH5Tsc0gOcrT3ZKQfHqiJAnxrg48yTp-mNNyq-fVQDVAcTAKbAVCZX17k7EgaEBA1ZGP2AOtRyTHN4Yq2EMx5G1c40jeWQ5jQzD3jtFc2lTLZa8hnDCMpnC08fv18s9BIu0pcb4JOtgQkODct9uRdGDdb0VrcQRAeuhEbGrv43MpGl4PDRi1whw83w0sFejTPYDH_C5eeakzcijKPP0iC53zIBZYYA/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FTutorials > <https://secure-web.cisco.com/1rODvJs1ai8ocaVd_PRpeTFJnXk0wukmSM7yCNRCloKKL4ZPQZOCVExtqPxRRAOWBluRDRjQqno9QrifD6CT8o6C91nxLIK51ygwiD_a39suQIFvjfTIAwewDsrBzOPd0KafjQda5FJFwreS1HTt1HosPKu8vwfBtxK_-pjMFsWnozXAMp9NfzqiKFBVYdRwC2tKzjM4egHuUwi4z9lf6LD2g73pypGrmcJy2WLqaqKyrv8HZQznR_0PD-S2Yvn_wIR0dwiBFmkDXRxUl-Q8v_w/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FTutorials> > ) > > - Introduction to Freesurfer Output (*MailScanner has detected a possible > fraud attempt from "secure-web.cisco.com" claiming to be* > https://secure-web.cisco.com/1ahyWJKeUfxcd9Oz8gbPetQUs3xComVErQgv5WPNOSKYbkQnOB-ovmCluxw-OJcOSIwF7-Uc4GvyaWyHSLR4lri8gMjL5qLQhIYcjO_mrBlT6qLqOiJqsXYYi-aGJtwO07274wy1tnxcJfnNM-D1J9zyHLdU0wZt7_tqTyvE5OKmL2LdrEqcExJdVR56TSs7BeT127sWgVk3YBXwUzaj8HnIu5Yk6JZmZux9xGvW_f0X15e3XLC0Kwf-bdvfRKscgx0s4PmxOJImHsVBiBkHI2A/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FFsTutorial%2FOutputData_freeview > <https://secure-web.cisco.com/18uPMHpt-EW_7l-sGIaivhnHa95jFiH6KEsNWb04DvYfYf5ZGlM1P6TunxF4ua8lyLPmgu4nvzTMwzZcdxgpYY5VayEiZvGZqVbJZ5D2JYEF5oTJxv7waaXt3YGX6jWknB4IjYDcr0omjY4c3L9yXXHLouBDOyWD-y-S2XtFdj5rSiS32CBQr9fuottLqbP1ApRZsrxO2C2BQY3-BldhPPwZuf5BG1Wk8kfubSeTdsQY5oHR0a_5P2pa15O22b_v8f96s2PK40XcUbmIyZJr2Pg/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FFsTutorial%2FOutputData_freeview> > ) > - Troubleshooting your output (*MailScanner has detected a possible fraud > attempt from "secure-web.cisco.com" claiming to be* > https://secure-web.cisco.com/1lV0fxZL0BMC9xPLoF4ZmBC_y6-f-8pfzbd1a4Ma3P0e9md_EaoBjBYAX9XsK9kREThgBhJDShpQMznuVrFXgboUVmPKKS242O7M1mqsvoakgarO2Yd614iL7vSrCTXareswW3sjTEo6lyoHDYzEOAFQ_al5Qq8d7PP0NE8g_u3l0WbfEp-nJsGvg5VpNyQV9gLLXHh-bUEeBGFJ3KVjzqlIh7hp5cTZVHHMm32DFzNoIm45_LhFd3k5nXEgGSa_CkbNToUh6ZgvKc-7qjXtn8A/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FFsTutorial%2FTroubleshootingData > <https://secure-web.cisco.com/1zI67HQZxy9cLn2I7uNmt2Vr-hMBP6KFcnjs-2A6egLkEI1MdK1Gq5cjgRVpOKFeY0BZHSQpCxQ_hvmo-1q_fm4W5LBFlzeRGLRkMeqnlLkCjVUHD91Mg4XY5bp69Vv4H6Ki2R5vSBBt-vqF1FTgrVYSdUrw2DT9R9zxt4y9rWxSh5-0__pOG9knY3Wo_iwk1tqsMMeTL6-stQkgJwC6RUi7qglYapWN7yyR5yIfYachGm9H6TULtIlGONzwBDlLjpFHrzKvuV3VeugenXt3RuA/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FFsTutorial%2FTroubleshootingData> > ) > - Quality Check a FreeSurfer Recon Demo (*MailScanner has detected a > possible fraud attempt from "secure-web.cisco.com" claiming to be* > https://secure-web.cisco.com/1LJ8OCErnRX1PHiErdWFjzl0M0aLTJpPR6JECKTqfxToV_IduQe2RgPSLgwsedajeFZpUdVeTFeerIBu968iB-Og8bg6ESgRrg7OKUHw8ABEN9b8o3YSdp2aIfLocB1cp5PgqiLxzRD6XVlGAvv2ccNKwljTM7rPFBlbviOlJDWf8nxxyU4QWEJ4AEvDsIOPEwK_Gy1IpP3yzCwp5MNE2BPnEXi4O1BpzqJy3eUmVHeDNhPgzI7xS_uz2bBuoGvivj_WoWnYwyd0V6x6msRpwUg/https%3A%2F%2Fwww.youtube.com%2Fwatch%3Fv%3DAR83_Bt04VQ > <https://secure-web.cisco.com/1QerwbflgUAsGFSC22lK8ez-lDsA9D3P7CJypkBpY72fGywKINhle2vo9kPS3sRJshRi7RBTgT3m5i4YzA51pzGB9J7ozBiNK_3EJYqP80jsPsR2MgunkxzNuzhwrWyjyAkDaKuii2Ak2stl5dJifUtwrZ80fr8twb486IsKisN8ktU2NQ-NBSzVzwIcltDwaBTYGPzQrKb2zwAXiXm-V3z4TdghHvMclkYac6iKI1Y70xc6GPHROPaVuBFPqBIGI4chLrGmPOYRQ_r6QDW9VtA/https%3A%2F%2Fwww.youtube.com%2Fwatch%3Fv%3DAR83_Bt04VQ> > ) > > Also, I have read there is an example of segmentation that comes with >> FreeSurfer that is called Bert. I think it would be great to have it so I >> can look at it as a good example. >> > > There should be an example that comes with the FreeSurfer installation. I > can't remember exactly what comes with v6, but you should find more info > with `cat $FREESURFER_HOME/subjects/README` > > Good luck! > > -Paul > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://secure-web.cisco.com/1DHbxGoPwPUUJCixsnh0mQrCQIauHUV98bwCgaNLKb83X09xBfK7o3X7Uj5F1Y6vzxIjPlgV3ZT2vp7aXbVPuSqFUlzb0B7FLzyGgqeZqPmkAJjw3lKAfF7RIsCffMVJ9jCBMQA-Vgekre5xLOi3QnMERQYAK1OVgBr2yQOkgGEPmchh-WHSaNpec76HTrPZ0oPHAfDDUZzQuwMJ7eLtNnMV9QlgJrwqumWlesuSvss-zlM0815iNPvDqSGyL7Og3ArkzucOeLoxq2I9Zkh3aAQ/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer
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