Dear Erik / Angela, the atlas in 5.3 was derived from manual annotations on in vivo images that relied largely on geometric rules, and led to volume estimates that did not agree well with histology studies. The new atlas is based on ex vivo MRI and agrees better with histology. Moreover, it also has the option to input higher resolution images (in addition to the standard 1 mm T1), which yield a much better fit of the internal structure of the hippocampus. That said, IMHO you can still publish papers with the old tool; you just need to be careful with the interpretation of the results, and discuss these issues in the submission. Kind regards, /Eugenio
Juan Eugenio Iglesias Postdoctoral researcher BCBL www.jeiglesias.com www.bcbl.eu Legal disclaimer/Aviso legal/Lege-oharra: www.bcbl.eu/legal-disclaimer ----- Original Message ----- From: "Erik O'Hanlon" <erikohan...@rcsi.ie> To: "Freesurfer support list" <freesurfer@nmr.mgh.harvard.edu> Sent: Tuesday, December 2, 2014 11:20:35 PM Subject: Re: [Freesurfer] Hippocampal subfields Hi FS experts, Yes, I'm in the same position and have been trying to do it longitudinally. Does this mean that the outputs are completely unreliable and unstable? Should it be parked until the release of version 6? Thanks Erik Erik O'Hanlon Postdoctoral researcher RCSI Psychiatry Royal College of Surgeons in Ireland Beaumont Road, Beaumont, D9, Ireland T: 8093740 E: erikohan...@rcsi.ie W: www.rcsi.ie RCSI DEVELOPING HEALTHCARE LEADERS WHO MAKE A DIFFERENCE WORLDWIDE ________________________________________ From: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of angela.fav...@unipd.it [angela.fav...@unipd.it] Sent: 02 December 2014 21:53 To: Freesurfer support list Subject: Re: [Freesurfer] Hippocampal subfields Hi all, this is really a terrible news! I am writing a paper using hippocampal subfields (ver 5.3). What is the problem with segmentation using this tool? Is it reliable at least on some of the subfield? When will Freesurfer 6 be released? Thank you Angela > Hi Georg, > we will be releasing with FreeSurfer 6 a new hippocampal subfield module > based on a more accurate atlas built upon ex vivo MRI scans. However, if > what you are interested in is the whole hippocampal volume, the results > from the new module won't be too different. > Cheers, > /Eugenio > > Juan Eugenio Iglesias > Postdoctoral researcher BCBL > www.jeiglesias.com > www.bcbl.eu > > Legal disclaimer/Aviso legal/Lege-oharra: www.bcbl.eu/legal-disclaimer > > > ----- Original Message ----- > From: "Georg Ferdinand Anto von Polier" <gvonpol...@ukaachen.de> > To: "Freesurfer support list" <freesurfer@nmr.mgh.harvard.edu> > Sent: Tuesday, December 2, 2014 2:46:40 PM > Subject: [Freesurfer] Hippocampal subfields > > > > > > Dear FreeSurfers, > > > > I am just finishing a paper using output from Hippocampal subfields and > recognized that the current version has been deprecated. I am interested > in volumes of the whole hippocampus. > > Are these volumes still valid and can you estimate when a new version will > be available? Can you provide maybe a brief comment on the decision to > deprecate the current version? > > Best regards, > > Georg > > > _______________________________________________ > 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 _______________________________________________ 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
