Re: [Freesurfer] Hypothalamus segmentation using hypothalamic subunits vs ScLimbic

://www.jeiglesias.com From: on behalf of Asmin Alam Reply-To: Freesurfer support list Date: Monday, March 13, 2023 at 13:02 To: "freesurfer@nmr.mgh.harvard.edu" Subject: [Freesurfer] Hypothalamus segmentation using hypothalamic subunits vs ScLimbic External Email - Use Ca

[Freesurfer] Hypothalamus segmentation using hypothalamic subunits vs ScLimbic

External Email - Use Caution Dear FreeSurfer Experts, I have a question regarding how the hypothalamus volumes are calculated using the hypothalamic subunits function, as opposed to the ScLimbic deep learning tool which is only currently available in the dev version of Freesurfer.

Re: [Freesurfer] Hypothalamus segmentation output

dTOaZtkKVFLGzvpEJyFh7uHTXyHrg/http%3A%2F%2Fwww.jeiglesias.com > > > > > > > > *From: * on behalf of "Lab of > Autism and Developmental Neuroscience, Lab of Autism and Developmental > Neuroscience" > *Reply-To: *Freesurfer support list > *Date: *Tues

Re: [Freesurfer] Hypothalamus segmentation output

m and Developmental Neuroscience, Lab of Autism and Developmental Neuroscience" Reply-To: Freesurfer support list Date: Tuesday, March 16, 2021 at 23:22 To: Freesurfer support list Subject: [Freesurfer] Hypothalamus segmentation output External Email - Use Caution Dear Freesurfer experts,

[Freesurfer] Hypothalamus segmentation output

External Email - Use Caution Dear Freesurfer experts, Hope that you all are well and stay safe. I would like some help figuring out the code to open the output for the hypothalamus segmentation (via freeview). Does anyone have this info? I didn't find it on the website. Thank yo

Re: [Freesurfer] Hypothalamus segmentation - Freesurfer 7.1

of Autism and Developmental Neuroscience, Lab of Autism and Developmental Neuroscience Date: Tuesday, February 2, 2021 at 1:08 PM To: Freesurfer support list Subject: Re: [Freesurfer] Hypothalamus segmentation - Freesurfer 7.1 External Email - Use Caution Thank you for your help! I

Re: [Freesurfer] Hypothalamus segmentation - Freesurfer 7.1

External Email - Use Caution Thank you for your help! I have tested the hypothalamus segmentation on the development version of FS, and this was the error output that I got (see below). How should I proceed to fix this? :~/Documents$ mri_segment_hypothalamic_subunits --s UCL55003

Re: [Freesurfer] Hypothalamus segmentation - Freesurfer 7.1

It is not in version 7. You'll have to download a development version of FS to run it. On 1/29/2021 9:26 PM, Lab of Autism and Developmental Neuroscience, Lab of Autism and Developmental Neuroscience wrote: External Email - Use Caution Dear Freesurfer experts, I am having some troub

[Freesurfer] Hypothalamus segmentation - Freesurfer 7.1

External Email - Use Caution Dear Freesurfer experts, I am having some trouble getting the hypothalamus segmentation recognized on the command line for FreeSurfer 7.1.0. Is it even available for this version? If not, will it work on the 6.0 or the 7.1.1 version? Thanks and stay s

Re: [Freesurfer] Hypothalamus

Hi Zheng sorry, but hypothalamus is not a segmentation target of ours yet. It is on our list though cheers Bruce On Wed, 27 Jun 2018, 郑凤莲 wrote: External Email - Use Caution Hi FS experts, I want to study the volume changes of Hypothalamus in FS 6.0. However, I cannot fi

[Freesurfer] Hypothalamus

External Email - Use Caution Hi FS experts, I want to study the volume changes of Hypothalamus in FS 6.0. However, I cannot find information about Hypothalamus in Wiki. Is there any description about Hypothalamus? I am looking forward to your reply. Thank you very much. Sincerely

Re: [Freesurfer] hypothalamus?

Hi Ella, There are a number of options: You can draw manual segmentations on individual subjects, though the time and cost required for this labor-intensive process of manual tracing has become prohibitive. Paul's suggestion would be a better one, maybe one of our protocols described in e.g. h

Re: [Freesurfer] hypothalamus?

Hi Ella yes, it does not cheers Bruce On Tue, 18 Mar 2014, Ella wrote: > Hi all, > > I'm looking to create a mask for the hypothalamus on individual subjects. > I've had a good look at the literature, and at the moment, am I right in > thinking the automatic segmentation in Freesurfer doesn't

Re: [Freesurfer] hypothalamus?

Ella, My understanding is the same. I've made my own ROI by hand drawing on the average subject and using various commands to map onto individual subjects. If you're doing resting analysis then you can check your general whole brain correlation results against the literature to see if your ROI

[Freesurfer] hypothalamus?

Hi all, I'm looking to create a mask for the hypothalamus on individual subjects. I've had a good look at the literature, and at the moment, am I right in thinking the automatic segmentation in Freesurfer doesn't currently include the hypothalamus? thanks in advance Ella