External Email - Use Caution Thanks for your reply Eugenio. You have mentioned like "No recon-all on the T2 required, as it's used in a different way". May I know the actual purpose of using T2 images for reconstruction process. Why we should not T2 images as input for recon-all command. Regards, Janani
From: freesurfer-boun...@nmr.mgh.harvard.edu [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Iglesias Gonzalez, Eugenio Sent: 04 May 2018 12:50 To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>; Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] T2 weighted images as input for recon-all command External Email - Use Caution Hola Miguel Ángel, First, you need to run the T1 through recon-all normally, as you have already done. Next, you run the subfield module with the highres T2 as input - no recon-all on the T2 required, as it's used in a different way. Cheers Eugenio Sent from my phone, please excuse brevity and typos ________________________________ From: freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu> <freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>> on behalf of Miguel Ángel Rivas Fernández <miguelrivasf...@gmail.com<mailto:miguelrivasf...@gmail.com>> Sent: Thursday, May 3, 2018 11:08:17 PM To: Freesurfer support list Subject: Re: [Freesurfer] T2 weighted images as input for recon-all command External Email - Use Caution Hi Freesurfer developers, I have executed the recon-all command using the T1 images but I would be interested in doing a reconstruction of the hippocampal subregions using for that purpose a higher resolution images (eg T2 or FLAIR) as input. I read here https://surfer.nmr.mgh.harvard.edu/fswiki/HippocampalSubfields<https://apac01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FHippocampalSubfields&data=02%7C01%7Cjananimj%40hcl.com%7C733fab39e9994ea213fb08d5b18f8582%7C189de737c93a4f5a8b686f4ca9941912%7C0%7C1%7C636610152364530300&sdata=H1MJaa6TKp%2BOBlGtJM%2F%2BjnQBIdhAWvUS94hG9a3kC8c%3D&reserved=0> that is possible make hippocampal segmentation using the T2 images, but if T2 images cannot be used as input to execute the recon-all in consecuence I can´t do the segmentation of hippocampal subfields or on the contrary the recon-all and the hippocampal subfields segmentation are two operations that can be executed independently ? I hope to have explained myself correctly Thanks in advance. Cheers 2018-05-03 18:28 GMT+02:00 Douglas N. Greve <dgr...@mgh.harvard.edu<mailto:dgr...@mgh.harvard.edu>>: No, not currently On 05/03/2018 11:26 AM, M Janani wrote: > > Hi Team, > > I have one doubt. Can I input T2 weighted images for > recon-all command? > > Regards, > > Janani > > ::DISCLAIMER:: > -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- > The contents of this e-mail and any attachment(s) are confidential and > intended for the named recipient(s) only. E-mail transmission is not > guaranteed to be secure or error-free as information could be > intercepted, corrupted, lost, destroyed, arrive late or incomplete, or > may contain viruses in transmission. 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