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Hi Doug,
I just wanted to follow up on this. Were you able to download the zip file ok?
Best,
Ryan
On 4/18/18, 10:46 AM, "Ryan Flores" ryan10@stanford.edu wrote:
Yes, of course. Please see attached.
Best,
Ryan
-- Ryan Flores Clinical Research Coordinator On 4/18/18, 10:39 AM, "freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Douglas N. Greve" <freesurfer-bounces@nmr.mgh.harvard.edu on behalf of dgreve@mgh.harvard.edu> wrote:
can you send me Hammers_mith_atlas_n30r83_SPM5.nii.gz ?
On 04/17/2018 07:55 PM, Ryan Flores wrote: > > Hi Doug, > > Thank you for your response. I attempted to run recon-all on the > Hammersmith nifti file as suggested, but unfortunately it appears to > have run into some issues. I’ve attached the recon-all.log for reference. > > Best, > > Ryan > > -- > > Ryan Flores > > Clinical Research Coordinator > > *From: *freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Douglas > Greve dgreve@mgh.harvard.edu > *Reply-To: *Freesurfer support list freesurfer@nmr.mgh.harvard.edu > *Date: *Tuesday, April 17, 2018 at 9:33 AM > *To: *"freesurfer@nmr.mgh.harvard.edu" freesurfer@nmr.mgh.harvard.edu > *Subject: *Re: [Freesurfer] Recon-all w/ Hammersmith atlas > > Sorry, just seeing that you also want cortical summaries. Those might > be easier. You should run recon-all on the T1 template for the > hammersmith. You can then create your own hammersmith annotation by > mapping the atlas labels onto the surface (mri_vol2surf) and then > mris_seg2annot. You can then use mris_apply_reg to map the annotation > to the surface of an individual (or fsaverage). > > On 4/16/18 3:14 PM, Ryan Flores wrote: > > Hi Freesurfer Developers, > > Our group is hoping to obtain the cortical thickness, surface > area, and volume for various cortical regions (as well as some > subcortical volumes); however, we would like these values to be > outputted with respect to the regions delineated in the > Hammersmith atlas. This atlas is available for free online > (http://brain-development.org/brain-atlases/adult-brain-maximum-probability-m...) > and I’ve included a screenshot to show you what files are included > in the download. Based on this information, what is the best > and/or most straight forward to move forward? > > Thank you for your time. I look forward to hearing from you. > > 1. FreeSurfer version: > freesurfer-i386-apple-darwin11.4.2-stable6-20170119 > 2. Platform: macOS High Sierra (Version 10.13.1) > > Best, > > Ryan > > -- > > Ryan Flores > > Clinical Research Coordinator > > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edumailto:Freesurfer@nmr.mgh.harvard.edu > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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