[Freesurfer] Atlas question

External Email - Use Caution Hi FS developers I'm doing an ROI analysis with data data and was wondering if there exists a merged Freesurfer white matter parcellation and Johns Hopkins University white matter label atlas. If yes what is it called and where can I find it? I am tryin

[Freesurfer] MRI_seg stats for multiple subjects

External Email - Use Caution Hi freesurfer developers, I am trying to run mri segstats for multiple subjects but the following only produces one text file for the first subject. Any idea what I am doing wrong? for subj in $(cat sessid.txt); do mri_segstats --seg /Users/Desktop/AUT

[Freesurfer] Group Analysis

External Email - Use Caution Hi Freesurfer experts, I was looking to run the three steps of group analysis-mris preproc, mri surf2surf using the measure volume and unsure of how to go about it since the wiki page talks about thickness only. I would appreciate any help. Best, Sara

Re: [Freesurfer] Group Analysis {Disarmed}

TxCvNFa0TLbAOsM4s7GmxLy5P5fTUvxHL-O9jtRMg3oNmO_qppP5uvufABpjw/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2Fasegstats2table%3Fhighlight%3D%25 > 28asegstats%29 > > Best, > Jocelyn > -- > *From:* freesurfer-boun...@nmr.mgh.harvard.edu < > freesurfer-boun.

[Freesurfer] (no subject)

External Email - Use Caution Hi Freesurfer experts, I'm doing a surface based volume analysis and wanted to know if there was a flag to regress out eTIV in the model. Thank you ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu

[Freesurfer] group analyses

External Email - Use Caution Hi FS developers, I ran mris_preproc, surf2 surf and glmfit and cluster analyses (monte carlo) for a surface based thickness group analysis. I am trying to extract volume measures from the same significant thickness ROIs. Is there any way to do this? T

Re: [Freesurfer] group analyses {Disarmed}

s, > Jocelyn > -- > *From:* freesurfer-boun...@nmr.mgh.harvard.edu < > freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Sara Lyn < > saralyn...@gmail.com> > *Sent:* Monday, December 7, 2020 10:43 AM > *To:* Freesurfer support list > *S

Re: [Freesurfer] group analyses {Disarmed}

> the ocn to this file using mri_segstats using the --avgwf and --accumulate > flags (and --exclude 0). This will give you a nsubjects-by-nclusters text > file where each entry is the volume for that subject/cluster > > On 12/8/2020 10:48 AM, Sara Lyn wrote: > > External Email

Re: [Freesurfer] group analyses {Disarmed}

External Email - Use Caution And also i'm trying to extract these values from the uncorrected maps not corrected. Is there a way for that? Thank you On Mon, Dec 14, 2020 at 9:59 AM Sara Lyn wrote: > Hi > Thank you for your response. How do I correct this extracted

[Freesurfer] white matter volume

External Email - Use Caution Hi, Is there a way to get at the white matter volume from a group analysis? Sara ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

[Freesurfer] cortical thickness ROI

External Email - Use Caution Hi Freesurfer developers, I wanted to know if I could use an ROI obtained from cortical thickness group analysis to obtain FA values from that same ROI for each of the subjects. Appreciate any guidance, thank you. Sincerely, Sara _

Re: [Freesurfer] white matter volume

External Email - Use Caution Hi Dr Greve, Instead of using DTI to get at the FA/MD etc measures is there a way to get at the volume of the white matter? Best, Sara On Tue, Feb 2, 2021 at 10:54 AM Douglas N. Greve wrote: > Not sure what you mean > > On 2/1/2021 12:32

Re: [Freesurfer] white matter volume

't understand. do you want to get the volume of WM from > DTI? > > On 2/2/2021 11:19 AM, Sara Lyn wrote: > > External Email - Use Caution > Hi Dr Greve, > > Instead of using DTI to get at the FA/MD etc measures is there a way to > get at the volume of the whi