Re: [Freesurfer] control point and aseg edit

Thank you very much Bruce. Best, Paul On Thu, Sep 14, 2017 at 4:02 PM, Bruce Fischl wrote: > I mean there will be no subsequent command that turn of the use of control > points in the aseg > > > cheers > Bruce > > > On Thu, 14 Sep 2017, miracle ozzoude wrote: > >

Re: [Freesurfer] control point and aseg edit

I mean there will be no subsequent command that turn of the use of control points in the aseg cheers Bruce On Thu, 14 Sep 2017, miracle ozzoude wrote: Thanks Bruce. resetting means, all my changes will be incorporated into the final output files?  Best,  Paul On Thu, Sep 14, 2017 at 3:52

Re: [Freesurfer] control point and aseg edit

Thanks Bruce. resetting means, all my changes will be incorporated into the final output files? Best, Paul On Thu, Sep 14, 2017 at 3:52 PM, Bruce Fischl wrote: > I'm not sure it matters, but if you put it at the end nothing will reset it > > On Thu, 14 Sep 2017,

Re: [Freesurfer] control point and aseg edit

I'm not sure it matters, but if you put it at the end nothing will reset it On Thu, 14 Sep 2017, miracle ozzoude wrote: Hello Bruce, Yes, that is my end goal. I have a patient i edited the aseg to include left-cerebral white matter and also, want to normalize the intensity using expert

Re: [Freesurfer] control point and aseg edit

Hello Bruce, Yes, that is my end goal. I have a patient i edited the aseg to include left-cerebral white matter and also, want to normalize the intensity using expert option. Where should I place the "-canorm-usecps" flag ? After the command like " recon-all -autorecon2 -autorecon3 -expert

Re: [Freesurfer] control point and aseg edit

do you want the control points to be applied to the aseg? If so, you need to also specify -canorm-usecps cheers Bruce On Thu, 14 Sep 2017, miracle ozzoude wrote: Thanks Bruce. Yes, I want to regenerate the aseg and also use the expert option for control point. That's recon-all -autorecon2

Re: [Freesurfer] control point and aseg edit

Thanks Bruce. Yes, I want to regenerate the aseg and also use the expert option for control point. That's recon-all -autorecon2 -autorecon3 -expert -parallel -openmp 8 -bigventricles -3T time. Best, Paul On Thu, Sep 14, 2017 at 2:48 PM, Bruce Fischl wrote: > do you

Re: [Freesurfer] control point and aseg edit

do you want it to regenerate the aseg? If not, then a). If so, then you would just run autorecon2 (instead of autorecon2-cp) cheers Bruce On Thu, 14 Sep 2017, miracle ozzoude wrote: I used the expert option for control points and manually edited the aseg.presurf.mgz. Which is the proper