[Freesurfer] How to cite freeview

Hello, what is the correct way to cite freeview in a papar for a manual rois segmentation task? Thanks, Luigi. ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in thi

Re: [Freesurfer] hippocampal subfields - multispectral segmentation with FLAIR

Ciao Eugenio, thanks a lot for the support. We made some tests and clearly the high res T2 gives the best subfields contrast. We will proceed with the ADNI like parameters. Have a nice day, Luigi. ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu

[Freesurfer] hippocampal subfields - multispectral segmentation with FLAIR

Dear members, in our center we are evaluating whether to introduce a T2 into a protocol that, among others, already includes a T1 and a FLAIR sequences. Our main concern is to to maximize the information-to-duration ratio of the entire protocol. In order to improve the subfields' segmentation w

Re: [Freesurfer] segmentation fault mri_convert Ubuntu 14.04

Thank you Zeke. I copied the library from a third computer and now there are no more segmentation faults. Probelm solved. Best, Luigi. ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

Re: [Freesurfer] segmentation fault mri_convert Ubuntu 14.04

Dear all, I'm facing the same problem of Alessandra, but the solution provided by Zeke doesn't work for me. I still get a segmentation fault in converting mnc to nii. Thanks in advance for your help. Luigi. ___ Freesurfer mailing list Freesurfer@nmr.mgh.h

[Freesurfer] DICE coefficient computing inconsistency

nts. XY=volume of intersection diceXY = 2.0 * XY / (VolX + VolY) return diceXY Best regards, Luigi Antelmi ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in th

Re: [Freesurfer] hippocampal subfields: from posterior to binary masks

disclaimer/Aviso legal/Lege-oharra: www.bcbl.eu/legal-disclaimer > > > - Original Message - > From: "Luigi Antelmi" > To: "e iglesias" , freesurfer@nmr.mgh.harvard.edu > Sent: Tuesday, September 9, 2014 11:48:10 AM > Subject: Re: [Freesurfer] hi

Re: [Freesurfer] hippocampal subfields: from posterior to binary masks

Dear Eugenio, /"assign to each voxel the label with the highest posterior probability" /implies that each voxel must belong to *one and only one* label, right? I've found that this is not the case with the posterior_*.mgz files outputted by freesurfer, where each voxel (especially the ones wi

Re: [Freesurfer] hippocampal subfields: from posterior to binary masks

(with some intermediate passages) Find the threshold value *thr* such that: Does this make any sense to you? Luigi. ​ 2014-09-08 9:49 GMT+02:00 Luigi Antelmi : > Dear list members, > > as you know, the hippocampal subfields given back by FreeSurfer > (posterior_left_CA1.mgz, pos

[Freesurfer] hippocampal subfields: from posterior to binary masks

Dear list members, as you know, the hippocampal subfields given back by FreeSurfer (posterior_left_CA1.mgz, posterior_left_CA2-3.mgz, etc.) are posterior probability maps in the range [0-255] (i.e. [0-1] with 8 bit of quantization). Although there is a way to calculate the volume ( kvlQuantifyPost