Re: [Freesurfer] [FreeSurfer] Aseg.mgz not reflected on aparc+aseg.mgz

In the freesurfer wiki tutorial instructs us to use #2 and you asked me to try #3 and then asked me to try #4 On Sep 2, 2015, at 9:11 AM, Douglas Greve wrote: > I'm a bit confused because both #2 and #3 should have run #4, so in the end > you just need to do #1 and #4 > > > On 9/1/15 8:11 PM

Re: [Freesurfer] [FreeSurfer] Aseg.mgz not reflected on aparc+aseg.mgz

I'm a bit confused because both #2 and #3 should have run #4, so in the end you just need to do #1 and #4 On 9/1/15 8:11 PM, fmri wrote: Thank You Much Buddy That did it :) , Manual edits to aseg.mgz reflected onto aparc+aseg.mgz. Just to clarify; Is this the correct order? 1. manual edit

Re: [Freesurfer] [FreeSurfer] Aseg.mgz not reflected on aparc+aseg.mgz

Thank You Much Buddy That did it :) , Manual edits to aseg.mgz reflected onto aparc+aseg.mgz. Just to clarify; Is this the correct order? 1. manual edit aseg.mgz 2. -autorecon2-noaseg -subjid mysubject* 3. recon-all -aparc2aseg 4. mri_aparc2aseg --s subject --volmask On Sep 1, 2015, at 2:4

Re: [Freesurfer] [FreeSurfer] Aseg.mgz not reflected on aparc+aseg.mgz

Try running mri_aparc2aseg --s subject --volmask On 8/31/15 10:51 PM, fmri wrote: after several attempts with multiple subjects command -autorecon2-noaseg -subjid mysubject followed by command recon-all -aparc2aseg aseg.mgz edits, are Not reflected onto the aparc+aseg.mgz On Aug 25, 2015

Re: [Freesurfer] [FreeSurfer] Aseg.mgz not reflected on aparc+aseg.mgz

after several attempts with multiple subjects command -autorecon2-noaseg -subjid mysubject followed by command recon-all -aparc2aseg aseg.mgz edits, are Not reflected onto the aparc+aseg.mgz On Aug 25, 2015, at 2:05 PM, Douglas N Greve wrote: > yes > > On 08/25/2015 01:11 PM, fmri wrote: >>

Re: [Freesurfer] [FreeSurfer] Aseg.mgz not reflected on aparc+aseg.mgz

yes On 08/25/2015 01:11 PM, fmri wrote: > Should we run this after recon-all autorecon2-noaseg -subjid ? > > On Aug 25, 2015, at 7:43 AM, Douglas Greve wrote: > >> Run recon-all -aparc2aseg >> >> On 8/24/15 7:00 PM, fmri wrote: >>> Hello FreeSurfer, >>> >>> How do I get edits made on aseg.mgz to r

Re: [Freesurfer] [FreeSurfer] Aseg.mgz not reflected on aparc+aseg.mgz

Should we run this after recon-all autorecon2-noaseg -subjid ? On Aug 25, 2015, at 7:43 AM, Douglas Greve wrote: > Run recon-all -aparc2aseg > > On 8/24/15 7:00 PM, fmri wrote: >> Hello FreeSurfer, >> >> How do I get edits made on aseg.mgz to reflect onto the aparc+aseg.mgz? >> >> I have tried

Re: [Freesurfer] [FreeSurfer] Aseg.mgz not reflected on aparc+aseg.mgz

Run recon-all -aparc2aseg On 8/24/15 7:00 PM, fmri wrote: Hello FreeSurfer, How do I get edits made on aseg.mgz to reflect onto the aparc+aseg.mgz? I have tried the *recon-all -autorecon2-noaseg -subjid mysubject* * * but the aparc+aseg.

[Freesurfer] [FreeSurfer] Aseg.mgz not reflected on aparc+aseg.mgz

Hello FreeSurfer, How do I get edits made on aseg.mgz to reflect onto the aparc+aseg.mgz? I have tried the recon-all -autorecon2-noaseg -subjid mysubject but the aparc+aseg.mgz is not created. Afterward I ran recon-all -autorecon3 -subjid mysubject this erased my edits to aseg and gave me the