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 Caution > > The 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-boun...@nmr.mgh.harvard.edu > <freesurfer-boun...@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 Caution >> >> Doug, >> >> 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-boun...@nmr.mgh.harvard.edu >> <freesurfer-boun...@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 Caution >>> >>> We 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 >>> >>> --------------------------------------------------------------------- >>> - >>> -- >>> >>> The materials in this message are private and may contain Protected >>> Healthcare Information or other information of a sensitive nature. If >>> you are not the intended recipient, be advised that any unauthorized >>> use, disclosure, copying or the taking of any action in reliance on >>> the contents of this information is strictly prohibited. If you have >>> received this email in error, please immediately notify the sender >>> via telephone or return mail. >>> >>> >>> _______________________________________________ >>> Freesurfer mailing list >>> 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 >> >> ________________________________ >> The materials in this message are private and may contain Protected >> Healthcare Information or other information of a sensitive nature. If you >> are not the intended recipient, be advised that any unauthorized use, >> disclosure, copying or the taking of any action in reliance on the contents >> of this information is strictly prohibited. If you have received this email >> in error, please immediately notify the sender via telephone or return mail. >> >> >> _______________________________________________ >> Freesurfer mailing list >> 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 > > ________________________________ > The materials in this message are private and may contain Protected > Healthcare Information or other information of a sensitive nature. If you are > not the intended recipient, be advised that any unauthorized use, disclosure, > copying or the taking of any action in reliance on the contents of this > information is strictly prohibited. If you have received this email in error, > please immediately notify the sender via telephone or return mail. > > > _______________________________________________ > Freesurfer mailing list > 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
