[Freesurfer] Inflation of RH only

ures, especially curvature and thickness. I'd like to know if this is true. In other words, are the inflations of LH and RH are correlated? Any more suggestions to get the RH parcellation data for brains with lesions in LH? Thank you for your time. XJ Kang On 7/7/2016 11:11 AM, Bruce

Re: [Freesurfer] epidewarp.fsl

Hi again, I posted a question about the script "epidewarp.fsl" but didn't see the answer. Anybody know where I can find a version working under fsl-5.X? Thanks. On 6/7/2014 5:29 PM, XJ Kang wrote: > Hi, > The script "epidewarp.fsl" included in the Free

[Freesurfer] epidewarp.fsl

or fsl 5.X, but I cannot download it. Is the link still valid? Please check or send me a new link to download the file. Thank you very much. XJ Kang ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailma

[Freesurfer] Total Surface Area

?), right? Secondly, which total area is more reasonable? Thanks. XJ Kang ___ 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

Re: [Freesurfer] [Fwd: Re: TRACULA dpath problem]

; Priti >> Original Message >> Subject: Re: [Freesurfer] TRACULA dpath problem >> From:"XJ Kang" >> Date:Fri, June 15, 2012 2:22 pm >> To: "Priti Srinivasan" >> --

Re: [Freesurfer] [Fwd: Re: TRACULA dpath problem]

he configurations file...Anastasia (cc'd) might be > able to answer that question. > > Hope that helps, > Priti >> ---- Original Message >> Subject: Re: [Freesurfer] TRACULA dpath problem >> From:"XJ Kang" >> Date:Fri,

[Freesurfer] TRACULA dpath problem

"trac-all -bedp". I have the directories dlable, dmri and dmir.bedpostX, but not dpath. Can any body help where the problems are? I use DTI images in NIFTI format and the resolution is 2x2x2, which is not the same as that of the FreeSurfer orig.mgz.

[Freesurfer] Job postings

*POSTDOCTORAL POSITION* *IMAGING HUMAN AUDITORY CORTEX*** The Human Cognitive Neurophysiology Laboratory (www.ebire.org/hcnlab ) affiliated with UC Davis and the Department of Veterans Affairs Northern California is searching for a postdoctoral fellow to study h

[Freesurfer] mri_convert left.right question

of the mgz images using mri_convert? Thank you for clearing this. XJ Kang ___ 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

[Freesurfer] Keyboard problem in FreeSurfer

happened to Hiroyuki (See below). I am wondering if this is a problem for 64-bit machine. Any suggestions? Thank you. XJ Kang >Dear all, > >I am running freesurfer 4.5 on Ubuntu9.10(64bit). >Is anybody experiencing " lost keyboard " problem? >I cannot put any number in t

[Freesurfer] FreeSurfer running time

Hi, Does anybody have experience running multiple freesurfer inflations on 2 quad core Xeon processors? How much time saved compared to one processor? I am wondering how much improvement of two processors over one. Thank you in advance for your suggestions. XJ Kang

[Freesurfer] mris_register

ing the options of mris_register. I am using FreeSurfer v4.0.1. Thank you for your help. XJ Kang mris_register [options] Options: -norot : disable initial rigid alignment -nosulc : disable initial sulc alignment -curv : use smoothwm curvature for final alignment -jacobian : write-out j

[Freesurfer] Cortical surface contour plotting

" in a 2D plane. I am wonderng how "tkmedit" plots the surface lines. Any freesurfer function can do this? Thanks. XJ Kang ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

[Freesurfer] average surface cuvature

averages a set of surface coordinates and generate an average surface using Talairach coordinates and spherical transform. For the spherical average, does it resample the individual spheres to a common spherical coordinates and average them? Thanks

[Freesurfer] FS parcellation colors

related each other? Or any way to figure out which parcellation include which vertices? Also, parcellation can be displayed in "outline" mode in tksurfer. Any way to find the outline points quickly? Thank you for your time. XJ Kang ___

[Freesurfer] Parcellation plotting

(colors) corresponding to each other? Or any program to read the surface points for each label? Another question: in tksurfer, parcellation can be displayed in "outline" mode. Any way to find the outline points quickly? Thank you. XJ Kang ___

[Freesurfer] Skull strip problem

Hi, I got the following message when doing the skull strip: *WATERSHED** preflooding height equal to 25 percent Sorting... T1-weighted MRI image modification of the preflooding height to 15 percent Count how many 110 voxels are prese

[Freesurfer] Extracting surface normals using mri_surf2surf

surface normals. Anything wrong with the new inflation? Thank you for your time. XJ Kang ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

[Freesurfer] llibglut.so.3 problem

Hi, I installed freesurfer-Linux-centos4_x86_64-stable-pub-v3.0.3-full.tar.gz on my Redhat Enterprise Linux WS release 3 (64 bit). When I ran the progam tkmedit or tksurfer, the error messages are: tkmedit: error while loading shared libraries: libglut.so.3: cannot open shared object file:

[Freesurfer] Installatin question

matter? Or I need to download another file? Thank you in advance. XJ Kang ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

[Freesurfer] GM/WM surface normal direction

Hi, Anywhere in the "surf" directory I can find the normal direction of each node on the GM/WM surface? Or anyway I can calculate the normal direction from the surface files? How about the direction between the correspoding two points on the GM/WM surface and pial surface? Thanks.

[Freesurfer] Convexity value

Hi, What are the units of "convexity" values (the last column) in ?h.sulc.asc? Probably in mm? The values are <+- 1. It seems the values are two small for "the signed distance" that a vertex moves during the inflation process. Thanks. XJ ___ Frees

[Freesurfer] Question about symmetry of registered spheres

display C on the flat map in (THETA, PHI), the maps of LH and RH are not symmetrical at all. I need some translation and rotation to make them look symmetrical. Any default position parameters in any files? Thanks in advance. XJ Kang ___ Freesurfer mailing

[Freesurfer] How to display lh.average.tif

Hi, I am trying to convert and display the average template ?h.average.tif. I already used "mrisp_paint" to get the average curve file "lh.avg_curv". How to display the file? Or convert it to an ascii file? Thanks in advance. XJ Kang __