[Freesurfer] mri_convert with --like and -rt options

on of freesurfer package I use is "Linux-centos6_x86_64-stable-pub-v5.3.0”. Best regards, -- Seung-Goo KIM ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in th

Re: [Freesurfer] mri_convert with --like and -rt options

seems it doesn’t (although I’m not very good at reading c codes..). Please correct me if I’m wrong and just me using mri_convert in a wrong way. Best, -- Seung-Goo KIM > On 2015-10-16, at 10:01, Seung-Goo KIM wrote: > > Dear all, > > I wish to know whether mri_convert provide

Re: [Freesurfer] mri_convert with --like and -rt options

1.Best,-SGHi Seung-GooI would have that that your command line would work as is. Can you send us the full screen output?cheersBruceOn Fri, 16 Oct 2015, Seung-Goo KIM wrote:Dear all,I wish to know whether mri_convert provide a nifty way to reslice and crop a NIFTIimage with labels (positive

[Freesurfer] Geodesic distance across hemispheres

geodesic distance, wouldn’t it? I wish to learn how other people deals with this problem. Best regards, -- Seung-Goo KIM ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The

[Freesurfer] [FSFAST] Contrast percent map

-th polynomial) for each run, but my calculation was different from cespct. I would take average intensity for each voxel I would greatly appreciate a detailed explanation how the program computes it. Best regards, -- Seung-Goo KIM ___ Freesurfer

[Freesurfer] Contrast percent map

1 > To: freesurfer@nmr.mgh.harvard.edu <mailto:freesurfer@nmr.mgh.harvard.edu> > > > you have the right idea, but it is > > cespct = 100*contrast/baseline > > The baseline is the mean offset of the fMRI, the contrast is the deviation > from baseline > > > O

[Freesurfer] [FSFAST] Matlab parallel

"selxavg3-sess” in my scripts? Best regards, -- Seung-Goo KIM ___ 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 w

Re: [Freesurfer] Fwd: Regarding: mris_label2annot

}/fsaverage ${YOUR_DIR}/fsaverage Best, -- Seung-Goo KIM > On 2017-02-04, at 03:07, Dr Sampada Sinha wrote: > > Dear Freesurfer experts, > > I am trying to create medial temporal lobe and for that I ran the command > mri_annotation2label to create ?h.entorhinal.lab

Re: [Freesurfer] [FSFAST] Matlab parallel

;bash>csh>matlab). -- Seung-Goo KIM > On 2017-02-03, at 15:51, Seung-Goo KIM wrote: > > Hi all, > > So this is a question about running FAST through matlab parallel desktop: I > know it is very funny (and inefficient) because I open up a bash in the > matlab to run a

[Freesurfer] selxavg3-sess: F-contrast but multiple dimension in sig

-values for the F-test, and what are the values in the sig.* file. + wait. is "fsig.*” for the F-test? and “sig.*” for a set of one-vs.-the-others contrasts? I would still appreciate if one can confirm it. Best regards, -- Seung-Goo KIM Research Group for Cortical Networks and Cognitive Func

Re: [Freesurfer] selxavg3-sess: F-contrast but multiple dimension in sig

Thank you very much, Doug, One more question: so the sig have all T-test results of contrasts like [1 0 0 … 0], [0 1 0 ... 0], …, [0 0 0 … 1], right? or [1 -1/(N-1) -1/(N-1), … -1/(N-1)] ? Best, -- Seung-Goo KIM > On 2017-02-06, at 18:54, Douglas N Greve wrote: > > yes, fsig is t

[Freesurfer] Freeview mac OSX firewall setting

Dear all, Has anyone using mac OSX experienced constant popping-up of a window asking firewall setting every time when you open FreeView although you have already set it? It's not critical but kind of annoying... so hope you one of you already solved it. Best, -- Seung-Goo ("SG") KIM, Ph.D. R

[Freesurfer] mri_thickness & mri_make_surfaces

mpute thickness, so I just linked “?h.pial” to “?h.gray”. Is this assumed input for mris_thickness? Best regards, -- Seung-Goo KIM ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer