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 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu>
wrote:
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 option.
Where should
I place the
"-canorm-usecps" flag ? After the command like " recon-all
-autorecon2
-autorecon3 -expert -parallel
-openmp 8 -bigventricles -3T time -canorm-usecps" or before
autorecon2 like
"recon-all -autorecon2
-canorm-usecps -autorecon3 -expert -parallel -openmp 8
-bigventricles -3T
time. Thank you.
Best,
Paul
On Thu, Sep 14, 2017 at 3:17 PM, Bruce Fischl
<fis...@nmr.mgh.harvard.edu>
wrote:
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 -autorecon3 -expert
-parallel
-openmp 8
-bigventricles -3T time.
Best,
Paul
On Thu, Sep 14, 2017 at 2:48 PM, Bruce Fischl
<fis...@nmr.mgh.harvard.edu>
wrote:
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 flag to use in other to incorporate
the
respective
changes?
a) recon-all -autorecon2-cp
-autorecon2-noaseg
-autorecon3
-expert -parallel
-openmp 8
-bigventricles -3T -time
or
b) recon-all -autorecon2-cp -autorecon3
-expert
-parallel
-openmp 8
-bigventricles -3T -time
Thanks.
Best,
Paul
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