Re: [Freesurfer] TRACULA - error

Hi Batool - Please send over your (actual and not made up :) config file and trac-all.log. a.y From: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Rizvi, Batool [br2...@cumc.columbia.edu] Sent: Tuesday, October

[Freesurfer] TRACULA - error

Hi, I'm running tracula using the following command: (Note: I'm replacing actual paths with made up paths) trac-all -prep -c /path/to/my/config.sh And for some reason it stops running while working on the first subject (creates the folder for the first subject), with this error: if: Expression

Re: [Freesurfer] Transformation between spaces

You would be running melodic from the command line. If you have further questions on CIFTI, the better place to ask would be the HCP-Users mailing list: https://www.humanconnectome.org/contact-us Peace, Matt. From: on behalf of Florence Campana

[Freesurfer] mri_aparc2aseg output file values

Freesurfer people, I have a label file that I want to make into a volume file only in the white matter to use in diffusion tractography. I was told to use mri_aparc2aseg to put the labels onto the WM surface and make them into a volume. I made the label files into annotation files using the

Re: [Freesurfer] Descriptions of regions in Yeo 2011 Network atlases

Thank you Thomas! ___ 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

[Freesurfer] R: Re: R: Re: R: Re: R: Re: R: Re: R: Re: Map of covariance

Thanks In which contrast I must change "1" with "0.25"? What is the rationale to use 0.25? Sent from Virgilio Mobile Il 10/10/2017, Douglas N Greve ha scritto: I don't understand what you mean by "where I should use" I thought I

Re: [Freesurfer] Transformation between spaces

Hi Matt, I follow-up on your suggestion of running MELODIC in surface. I am unsure about the registration files that I should use (I guess that they should be surface files?), notably for the Main Structural Images and the Standard Space. I am sorry if this sounds like a naive question. Thank

[Freesurfer] Postdoctoral Fellowship at Mayo Clinic in Imaging Biomarker Development

Postdoctoral Fellowship at Mayo Clinic in Imaging Biomarker Development Position Summary: A Research Fellow is being sought in the Department of Radiology at Mayo Clinic in Rochester, Minnesota. The focus of the research for this position will be on multimodal imaging changes (DTI, ASL, fMRI)

Re: [Freesurfer] R: Re: R: Re: R: Re: R: Re: R: Re: Map of covariance

I don't understand what you mean by "where I should use" I thought I looked through all those contrasts a few weeks ago, no? On 10/10/2017 04:22 AM, std...@virgilio.it wrote: > You have suggested to use > 0 0 0 0 .25 .25 .25 .25 > to look the map where, considering the group differences, the

Re: [Freesurfer] Original dimension

I found out the problem, thanks for your attention. Regards On Tue, Oct 10, 2017 at 12:32 AM Douglas Greve wrote: > what is the dimension of the rawavg.mgz? what is the dimension of the > output? What is the terminal output? > > On 10/8/17 1:51 AM, Fereshte wrote: > >

Re: [Freesurfer] Fwd: Tracula dpath error

Hi Anna - There was no method for intra-subject (diffusion to structural) registration selected in your config file, so some steps were skipped. Change the 0 to a 1 in this line: "set doregbbr = 0" and then rerun the preprocessing (you can skip the steps before the intra-subject registration if

[Freesurfer] R: Re: R: Re: R: Re: R: Re: R: Re: Map of covariance

You have suggested to use 0 0 0 0 .25 .25 .25 .25 to look the map where, considering the group differences, the covariate predicts the dependent variable (functional connectivity) in 4GV1. Below I'm reporting the contrast that I have used. Please could you check it and suggest correction? Could