External Email - Use Caution
Hi Doug,
The data I sent was generated using the development version, freesurfer-linux-centos7_x86_64-dev-20180807-df586ca. I downloaded the patch and will rerun the scans using version 6.
Thanks, François
On 1/24/19, 3:40 PM, "Greve, Douglas N.,Ph.D." DGREVE@mgh.harvard.edu wrote:
Version 6 does not work very well with such high-res data. I created a patch for the HCP that you can download from here ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/6.0.0-patch/hcp This works in version 6. Just follow the instructions in the README.
I ran it on your data, and it looks pretty good.
On 1/22/19 12:03 PM, Lalonde, Francois (NIH/NIMH) [E] wrote: > > External Email - Use Caution > > Hi, > > We collected an MP-RAGE scan at .6mm isotropic resolution with the TR > bumped up to TR=5. Subject motion artifacts were mitigated by using a > KinetiCor motion correction system. We followed the recommendations > for processing submillimeter scans described in the FreeSurfer Wiki > i.e. we added the -cm flag to recon-all and included the mris_inflate > -n 100 expert option. The attached PDF of the white matter surfaces > shows that they appear to be underestimated. The surface estimates > fall short of the actual grey/white matter boundary. Arrows point to > the most affected areas and the second image is the same as the first > but without the yellow white matter surface line. FTP is disabled on > my government computer. Please specify the recipient email if I have > to transfer the file using FileDrop. Could you suggest other options > either at the time of scanning or in running recon-all that could help > better segment the white matter? > > Thanks, > > François Lalonde, Ph.D. > > DNU/HGB/NIMH/NIH > > 10 Center Drive, Room 4D18 > > Bethesda, MD. 20892 > > flalonde@nih.gov > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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