Thanks for pointing this binary out- I didn't realize the user could access it outside of recon-all.
I've
had a look at the fswiki for mris_sphere and it doesn't seem to be
complete. I used it in the following format but not sure if this is
correct:
mris_sphere -n 160 -w 20 -scale 1 lh.orig lh.sphere_test
I
want to check that the above command converts lh.org to a sphere in 160
iterations, writes out every 20th iteration and ensures the area is
preserved?
Also, on the fswiki site:
I'm
not certain if <output patch> is synonymous with output surface?
Also, what is the purpose of a <patch file name>? Thanks.
> Date: Thu, 10 Apr 2014 11:30:15 -0400
> From: fischl@nmr.mgh.harvard.edu
> To: xuelongzhao@hotmail.com
> CC: freesurfer@nmr.mgh.harvard.edu; greve@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] Intermediate stages of cortical inflation
>
> yes, many of our binaries take the -w <n> flag to write out a snapshot of
> the minimization every nth step, including mris_sphere
>
> cheers
> Bruce
>
>
> On Thu, 10 Apr 2014, Xuelong Zhao wrote:
>
> > Is it also possible to track the inflation all the way to the sphere? I was hoping that
> > I could take snapshots of equi-area intermediate forms as the cortex is unfolded onto
> > the sphere instead of stopping at the inflated cortex. Thanks.
> >
> >
> >
> > > Date: Wed, 9 Apr 2014 08:31:46 -0400
> > > From: fischl@nmr.mgh.harvard.edu
> > > To: freesurfer@nmr.mgh.harvard.edu
> > > CC: greve@nmr.mgh.harvard.edu
> > > Subject: Re: [Freesurfer] Intermediate stages of cortical inflation
> > >
> > > you can use -w 1 to write out every step in the inflation process and
> > > choose what you want. If you want it to preserve surface area during
> > > inflation (as opposed to just at the end), also include -scale 1
> > >
> > > cheers
> > > Bruce
> > >
> > >
> > > On Wed, 9 Apr 2014, Xuelong Zhao wrote:
> > >
> > > > Hi,
> > > >
> > > > I would like to ask whether it is possible to display different levels of
> > > > cortical inflation?
> > > >
> > > > I have been using the command: mris_inflate
> > > >
> > > > but the -dist and -n flags do not seem to make that much difference. Also,
> > > > if I use fsaverage lh.orig as the input file and using the default options
> > > > for mris_Inflate I don't seem to be able to recover the lh.inflated surface.
> > > >
> > > > Are there any alternative commands to control the level of inflation?
> > > > Thanks.
> > > >
> > > >
> > > >
> > > >
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