External Email - Use Caution Thanks Doug, the commands gave the expected outputs. I used the original lh and rh BA_exvivo annotations and got the new BA+aseg.mgz and wmBA.mgz files. Yes, please let me know how to proceed with the new LUT.
On Tue, Feb 9, 2021 at 10:47 AM Douglas N. Greve <dgr...@mgh.harvard.edu> wrote: > Look in the subject/scripts/recon-all.cmd file of one of your subjects. > You will find five mri_surf2volseg commands > Use the 2nd one (the one that creates aparc+aseg.mgz) as your template and > modify it to take your BA annotation and output a "BA+aseg.mgz" > Use the last one ( the one that creates wmparc.mgz) as your template to > create your new wmBA.mgz file, modifying it as needed. > You will need to create a new LUT, but let's do that when you get there > > On 2/9/2021 10:26 AM, Vinny K wrote: > > External Email - Use Caution > I am using freesurfer-linux-centos7_x86_64-7.1.1-20200723-8b40551 > > On Tue, Feb 9, 2021 at 9:55 AM Douglas N. Greve <dgr...@mgh.harvard.edu> > wrote: > >> which version of FS are you using? >> >> On 2/5/2021 10:02 PM, Vinny K wrote: >> >> External Email - Use Caution >> Hello, >> >> I'd like to obtain white matter parcellations of the Brodmann areas. I >> am not certain that the generated wmparc file from recon-all has this type >> of parcellation. I was able to convert Brodmann area label files to mgz >> format using mris_label2annot and mri_aparc2aseg commands. How can I >> obtain white matter parcellation of the individual Brodmann area volumes? >> >> Thanks, >> >> Vinny >> >> _______________________________________________ >> Freesurfer mailing listfreesur...@nmr.mgh.harvard.edu*MailScanner has >> detected a possible fraud attempt from "secure-web.cisco.com" claiming to >> be* >> https://secure-web.cisco.com/1ZVwlNh8w2dkw0lUVsXw6gRvsfWpZi32SKA877TnjfxqHD2Ek-e6DRju8lQly6Rv6Ur3MuLYSsDHwTnPqWXgyG-4wzDbBdRjEQTdmaGqlxLcJaAOUzHUJz6ag21jyMhMaic3CBLNn__1AlQ_R62Py-F48ce9z4ceYtyHTqeTap1sY228lZZIHa1Fm4XpTgGFF1q3UaMe7KQYoJBdQqq8ImfxGGcjHnjGSgri8WS9baOjQZGkyVXoSuOHs5nz0S-nikTJqhyda4EL9GF09wQQmHw/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer >> >> <https://secure-web.cisco.com/1XPT6Fbpm6OPt_GvWVIsGXkx3tVw-af5z2c71ybRrUDrCELV2HU14Z0pZ4zkV81_g4WPn9CmLnCrzZ9R-ws2rCm9isgUA8nxrejdZWGn2XKDXv6k5WG46ksPYWzPDnwboVj3L3_NwMkfBiBQjwNq_UbqHi2PpeqsEiiEIhA3_G_WL6FScjnmcAHmxI_QcS55a7qrxQ0LDkA4E9vVb3Jku8awsyK9L5ZVLgwa9jNBU5VzRLZ0in3ks9uRaZOv22iSaZaaIP6LExb-CfWeowwYKMg/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer> >> >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> *MailScanner has detected a possible fraud attempt from >> "secure-web.cisco.com" claiming to be* >> https://secure-web.cisco.com/1ZVwlNh8w2dkw0lUVsXw6gRvsfWpZi32SKA877TnjfxqHD2Ek-e6DRju8lQly6Rv6Ur3MuLYSsDHwTnPqWXgyG-4wzDbBdRjEQTdmaGqlxLcJaAOUzHUJz6ag21jyMhMaic3CBLNn__1AlQ_R62Py-F48ce9z4ceYtyHTqeTap1sY228lZZIHa1Fm4XpTgGFF1q3UaMe7KQYoJBdQqq8ImfxGGcjHnjGSgri8WS9baOjQZGkyVXoSuOHs5nz0S-nikTJqhyda4EL9GF09wQQmHw/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer >> <https://secure-web.cisco.com/1XPT6Fbpm6OPt_GvWVIsGXkx3tVw-af5z2c71ybRrUDrCELV2HU14Z0pZ4zkV81_g4WPn9CmLnCrzZ9R-ws2rCm9isgUA8nxrejdZWGn2XKDXv6k5WG46ksPYWzPDnwboVj3L3_NwMkfBiBQjwNq_UbqHi2PpeqsEiiEIhA3_G_WL6FScjnmcAHmxI_QcS55a7qrxQ0LDkA4E9vVb3Jku8awsyK9L5ZVLgwa9jNBU5VzRLZ0in3ks9uRaZOv22iSaZaaIP6LExb-CfWeowwYKMg/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer> > > > _______________________________________________ > Freesurfer mailing > listfreesur...@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://secure-web.cisco.com/1ZVwlNh8w2dkw0lUVsXw6gRvsfWpZi32SKA877TnjfxqHD2Ek-e6DRju8lQly6Rv6Ur3MuLYSsDHwTnPqWXgyG-4wzDbBdRjEQTdmaGqlxLcJaAOUzHUJz6ag21jyMhMaic3CBLNn__1AlQ_R62Py-F48ce9z4ceYtyHTqeTap1sY228lZZIHa1Fm4XpTgGFF1q3UaMe7KQYoJBdQqq8ImfxGGcjHnjGSgri8WS9baOjQZGkyVXoSuOHs5nz0S-nikTJqhyda4EL9GF09wQQmHw/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer
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