Hi PPJ That's exactly what we are doing. Good to hear its stable for you Bruce
On Apr 10, 2013, at 8:38 AM, Pedro Paulo de Magalhães Oliveira Junior<p...@netfilter.com.br> wrote: > I have processed more that 600 brains with both versions in the last weeks > and the only difference I'm seeing between version 5.2.0 and 5.1, besides the > obvious new features, is processing time. > > Version 5.2 is 10% faster than 5.1 in an Amazon EC2 instance. > > Besides that there's no visible difference in terms of cortical thickness, > volumes, etc. > > If you have access to computer resources to spare you can run recon-all of > both versions in some well known database of images and do a more formal test. > > > > > > > --------------------------------------------------------------------- > Pedro Paulo de Magalhães Oliveira Junior > Netfilter & SpeedComm Telecom > -- www.netfilter.com.br > -- For mobile: http://itunes.apple.com/br/artist/netfilter/id365306441 > > > > On Wed, Apr 10, 2013 at 8:11 AM, Yang, Daniel <yung-jui.y...@yale.edu> wrote: > Dear FreeSurfer Experts and Users, > > Did anyone find similar things using FS 5.2 (please see my previous post > below)? That is, FS 5.2 is including more non-cortical "black spaces" > within pial surfaces, compared to FS 5.1? > > I'm not interested in nitpicking but I feel this is a rather serious > issue, so I would like to raise it again before it's completely forgotten. > > At the meantime I keep receiving Emails from people asking me this issue. > > Thanks! > Daniel > > -- > Yung-Jui "Daniel" Yang, PhD > Postdoctoral Researcher > Yale Child Study Center > New Haven, CT > (203) 737-5454 > > > > > > > On 3/19/13 7:07 AM, "Yang, Daniel" <yung-jui.y...@yale.edu> wrote: > > > > >Posting one of the brains. > > > >https://yalesurvey.qualtrics.com/SE/?SID=SV_ddwW7I9yMQuCtPn > > > > > >It seems to me that neither version is perfect; however, 5.2.0 is > >capturing more "black spaces" in the region I'm looking at. > > > >It's in the right hemisphere, TAL coordinate about ~ (44, -46, 20). > > > >Given that the correlation between 5.1.0 and 5.2.0 is r = .33 in the > >region I examined with my samples, it's not a systematic "predictable" > >bias. > > > >Any solution? > > > >-- > >Yung-Jui "Daniel" Yang, PhD > >Postdoctoral Researcher > >Yale Child Study Center > >New Haven, CT > >(203) 737-5454 > > > > > > > > > > > > > >On 3/18/13 6:27 PM, "Matt Glasser" <m...@ma-tea.com> wrote: > > > >>Do the surfaces look correct in these regions? You might post some > >>screenshots of subjects who have a big difference between 5.1 and 5.2 > >>with > >>the 5.1 and 5.2 white and pial surfaces on volume slices that highlight > >>the difference. Without this kind of info, its hard to know which was > >>more correct, 5.1 or 5.2. > >> > >>Peace, > >> > >>Matt. > >> > >>On 3/18/13 5:13 PM, "Ritobrato Datta" <rida...@mail.med.upenn.edu> wrote: > >> > >>>I concur. I have seen similar results in primary visual cortex from ~40 > >>>subjects. While fs 5.1 estimated mean thickness in the range of 1.5 to > >>>1.9 in V1, fs 5.2 is giving me V1 thickness in the range of 2 to 2.3. > >>> > >>>Ritobrato Datta, Ph.D. > >>>Post Doctoral Researcher > >>>Department of Neurology > >>>University of Pennsylvania School of Medicine > >>>3rd Floor, Room 312 > >>>3710 Hamilton Walk (Goddard Laboratories) > >>>Philadelphia, PA 19104-6241 > >>>email - rida...@mail.med.upenn.edu > >>> > >>> > >>>----- Original Message ----- > >>>From: Daniel Yang <yung-jui.y...@yale.edu> > >>>To: freesurfer@nmr.mgh.harvard.edu > >>>Sent: Mon, 18 Mar 2013 17:44:44 -0400 (EDT) > >>>Subject: [Freesurfer] Very different results between 5.1.0 and 5.2.0 > >>> > >>>Dear FreeSurfer Experts, > >>> > >>>I ran FreeSurfer 5.1.0 and FreeSurfer 5.2.0 on identical set of 161 > >>>subjects, and I'm interested in rh_superior_temporal_sulcus_thickness in > >>>particular. > >>> > >>>Previously, the mean thickness is 2.24 mm in 5.1.0; now it is 3.28 mm in > >>>5.2.0. They are significantly different, t(160) = 56.71. > >>> > >>>The correlation between the two versions is r = .33 > >>> > >>>Is this something possible?? I can't see what went wrong in my > >>>procedures. > >>> > >>>Thanks! > >>>Daniel > >>> > >>>-- > >>>Yung-Jui "Daniel" Yang, PhD > >>>Postdoctoral Researcher > >>>Yale Child Study Center > >>>New Haven, CT > >>>(203) 737-5454 > >>> > >>>_______________________________________________ > >>>Freesurfer mailing list > >>>Freesurfer@nmr.mgh.harvard.edu > >>>https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > >>> > >>> > >>>The information in this e-mail is intended only for the person to whom > >>>it > >>>is > >>>addressed. If you believe this e-mail was sent to you in error and the > >>>e-mail > >>>contains patient information, please contact the Partners Compliance > >>>HelpLine at > >>>http://www.partners.org/complianceline . If the e-mail was sent to you > >>>in > >>>error > >>>but does not contain patient information, please contact the sender and > >>>properly > >>>dispose of the e-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
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