You mean the surfaces using -hires look fine? If so, then continue to use -hires
On 10/24/19 6:32 PM, Alexopoulos, Dimitrios wrote:
External Email - Use CautionThe cortical parcellations in the aseg and aparc+seg have some issues in the orbital prefrontal regions and we're were hoping that the higher resolution images would help. The surfaces look fine.
We should use the -hires flag instead in this scenario?
Thx.
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Greve, Douglas N.,Ph.D. Sent: Thursday, October 24, 2019 5:06 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] recon-all at native resolution
oh, sorry, yes it is. The surfaces are placed on the high res volumes, but the aseg will be at 1mm. If you need the aseg at highres, then you will need to use the -hires flag (but the surfaces will suffer)
On 10/24/19 2:55 PM, Alexopoulos, Dimitrios wrote:
External Email - Use CautionDoug,
I copied over files and ran using the -conf2hires flag, however, the orig.mgz/brainmask.mgz are resampled to 1mm isotropic not the native 0.8mm.
Using the -hires flag maintains the orig.mgz/brainmask.mgz at native 0.8mm resolution.
Is this expected when running -conf2hires?
Jim
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Greve, Douglas N.,Ph.D. Sent: Tuesday, October 15, 2019 11:54 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] recon-all at native resolution
better to use a patch I created for the HCP, see https://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/6.0.0-patch/hcp /readme
On 10/15/19 12:13 PM, Alexopoulos, Dimitrios wrote:
External Email - Use CautionWe have data acquired at 0.8mm isotropic and would like to maintain this resolution in the processing stream rather than FS resampling to 1mm.
Is the command to do this 'recon-all -hires -all'?
Are there any drawback to doing this?
Jim
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