Re: [Freesurfer] How can I get only aparc+aseg.mgz

Sorry, there is no real shortcut for that - you have to run pretty much everything Cheers Bruce From: freesurfer-boun...@nmr.mgh.harvard.edu On Behalf Of Camargo, Aldo Sent: Friday, August 28, 2020 9:25 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] How can I get only aparc+aseg.m

[Freesurfer] How can I get only aparc+aseg.mgz

External Email - Use Caution Hi Freesurfer experts: I would like to get the aparc+aseg.mgz file, which options of recon-all should I use to get only that file. Because recon-all takes several hours. Have a nice day, Aldo ___ Freesurf

Re: [Freesurfer] How to re-run recon-all

External Email - Use Caution Thanks a lot Bruce, Aldo From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Fischl, Bruce Sent: Friday, August 28, 2020 4:15 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] How to re-run reco

Re: [Freesurfer] How to re-run recon-all

Hi Aldo You should be able to use recon-all -make all ... to run anything that did not complete. You might have to specify the -no-isrunning (or something like that) flag if it didn't terminate cleanly Cheers Bruce From: freesurfer-boun...@nmr.mgh.harvard.edu On Behalf Of Camargo, Aldo Sent:

[Freesurfer] How to re-run recon-all

External Email - Use Caution Hi Freeserufer experts: By mistake I cancel the recon-all when it was about 3 hours of processing. There is a way to re-run the recon-all and that continues where it was stopped ? Thanks a lot, Aldo ___ F

Re: [Freesurfer] Question about LGI stats file

External Email - Use Caution Understood! Thank you for your help and stay safe. On Tue, Aug 25, 2020 at 11:20 AM Douglas N. Greve wrote: > Yes, do this for each subject. If you put the result in subject/stats then > you can run asegstats2table with --statsfile=lh.aparc.pial_lgi

Re: [Freesurfer] Covariates vs sample size

Yes, you will have enough DOF if that is what you are asking On 8/28/20 4:31 AM, Sunil Khokhar wrote: External Email - Use Caution Dear Experts, With a sample size of 45, can I perform GLM analysis with one primary independent variable and 6 covariates? Dependent variable is cortica

Re: [Freesurfer] Cannot disable the topology correction

External Email - Use Caution Hi Douglas, thanks for your answer. I agree that desabling the topology correction is not recommended but I am dealing with subjects having many lacunar infarcts that impact this step (running for more than 2 days sometimes and leading to segmentatio

[Freesurfer] Covariates vs sample size

External Email - Use Caution Dear Experts, With a sample size of 45, can I perform GLM analysis with one primary independent variable and 6 covariates? Dependent variable is cortical thickness. Thanks in advance! Sunil. ___ Freesurfer