Dear Freesurfers,
Over the last years, MR imaging technology hasimproved such that sub 1-mm
isotropic scans can be obtained with good signal to noise characteristics.
For example, our lab uses 0.7mm isotropic structural MR images. I
understand that the Freesurfer pipeline will up-sample these to 1
Hi Joshua
yes, we already have upgraded mris_make_surfaces to take higher res data
and refine the surfaces with it. Haven't tried it on the aseg yet, but if
you upload a sample dataset I could see how hard it is.
cheers
Bruce
On Mon, 14 May 2012,
Joshua Lee wrote:
> Dear Freesurfers,
>
> Ove
urfer] Freesurfer 1mm Isotropic standard and the Future
Hi Joshua
yes, we already have upgraded mris_make_surfaces to take higher res data
and refine the surfaces with it. Haven't tried it on the aseg yet, but if
you upload a sample dataset I could see how hard it is.
cheers
Bruce
On Mon, 1
Hi Bruce,
Is there a flag for this on recon-all? Or do you need to use
mri_make_surfaces directly?
Best,
Michael
On Mon, May 14, 2012 at 2:09 PM, Bruce Fischl wrote:
> Hi Joshua
>
> yes, we already have upgraded mris_make_surfaces to take higher res data
> and refine the surfaces with it. Have
you need to call mris_make_surfaces directly. It's a bit complicated as you
need to intensity normalize and register the hires volume to the surfaces
first. I have an example script if anyone is interested, but no one has
used it yet but me I don't think (unless Matt Glasser has gotten his
vers
FreeSurfer
Subject: Re: [Freesurfer] Freesurfer 1mm Isotropic standard and the Future
you need to call mris_make_surfaces directly. It's a bit complicated as you
need to intensity normalize and register the hires volume to the surfaces
first. I have an example script if anyone is interested,
rfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Bruce Fischl
> Sent: Tuesday, May 15, 2012 7:29 AM
> To: Michael Waskom
> Cc: FreeSurfer
> Subject: Re: [Freesurfer] Freesurfer 1mm Isotropic standard and the Future
>
> you need to call mris_make_surfaces directly. It's a bit compl
Oops i just realized I only sent this to Bruce:
Thanks! It looks like this involves some manual intervention. Matt., I
assume you're not manually making control points on 1000s of subjects (I
imagine this is for the human connectcome project). Is your code public
somewhere?
Cheers,
Michael
On
Only because I was lazy! You can use surfaces for normalization too. I think
the script I gave Matt probably had that in it
On May 16, 2012, at 9:21 PM, Michael Waskom wrote:
> Oops i just realized I only sent this to Bruce:
>
> Thanks! It looks like this involves some manual intervention.
Hi Everyone,
Back in May I was very excited to learn that there was some movement toward
allowing Freesurfer to utilize the higher than 1mm iso. resolutions of some
of our structural images, which could be fantastic help in subcortical
segmentations. Is this something that is still in the works fo
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