[Freesurfer] recon-all

/Y24_010705a_STRUC. Thanks, Keyma Keyma Prince Massachusetts Institute of Technology Department of Brain and Cognitive Sciences NE20-392 Cambridge, MA 02139 ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo

Re: [Freesurfer] ERROR: nu_correct

) Keyma Prince Massachusetts Institute of Technology Department of Brain and Cognitive Sciences NE20-392 Cambridge, MA 02139 On Wed, 24 Aug 2005, Nick Schmansky wrote: > Kayma, > > Can you give it a try now? > > Also, can you type the following for me? > > cat /etc/redhat

Re: [Freesurfer] ERROR: nu_correct

s/mni/current/bin/nu_corr ect line 37. Keyma Prince Massachusetts Institute of Technology Department of Brain and Cognitive Sciences NE20-392 Cambridge, MA 02139 On Wed, 24 Aug 2005, Nick Schmansky wrote: > Keyma, > > Hi, on which machine does this occur? If you start a new she

[Freesurfer] ERROR: nu_correct

rrect -- Filesystem 1K-blocks Used Available Use% Mounted on engram:/local_mount/space/engram/11 68682136 44104560 24577576 65% /autofs/space/engram_011 -- recon-all exited with errors at Wed Aug 24 11:24:01 EDT 2005

Re: [Freesurfer] rh.qsphere = rh.orig

For rh.qsphere and rh.orig I get a total defect index = 0 and 0 holes. Based on what you said, I assume that the topology correction ran ok. So does this mean it's picking up the fact that I ran the qsphere twice? Can I go ahead with the parcellate_subject despite this? -Keyma Keyma P

[Freesurfer] rh.qsphere = rh.orig

Hi, When I run check_subject on one of my subject I get the following message: WARN: rh.qsphere is same size as rh.orig. I am not sure when the rh.qsphere is generated but can you let me know how to correct this problem so i can continue with parcellate_subject. thanks, Keyma Keyma Prince

[Freesurfer] Surface crossing

Hello, In the attached image the pial surface and the wm mater surface are crossing. Can you let me know if this should be fixed or if it will have an effect on the parcellation steps? The whole volume is located at /space/engram/10/users/rk_fmri_struc/Y15_102304_STRUC. -Keyma Keyma Prince

Re: [Freesurfer] mris_twoclass

bfloat ... INFO: bvolumeRead: min = 0.00363081, max = 0.725406 Done Loading var writing surface values to ./age-sigt-lh.w. avg = -1.378, stdev = 2.493, min = -14.280, max = 9.789 done Keyma Prince Massachusetts Institute of Technology Department of Brain and Cognitive Sciences NE20-392 Cambridge, MA 02139

[Freesurfer] mris_twoclass

llation results between 2 groups? thanks, -Keyma Keyma Prince Massachusetts Institute of Technology Department of Brain and Cognitive Sciences NE20-392 Cambridge, MA 02139 ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harv

Re: [Freesurfer] displaying annotation

->view->label > style or something like that). > > cheers, > Bruce > > On Fri, 8 Oct 2004, Keyma Prince wrote: > > > Hello, > > > > I would like to import the annotation file into the csurf but with only > > certain labels produced by parcellate sub

[Freesurfer] displaying annotation

file first? -Keyma Keyma Prince Massachusetts Institute of Technology Department of Brain and Cognitive Sciences NE20-392 Cambridge, MA 02139 ___ Freesurfer mailing list [EMAIL PROTECTED] https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

Re: [Freesurfer] New Segmentation

nevermind I found what i'm looking for. Keyma Prince Massachusetts Institute of Technology Department of Brain and Cognitive Sciences NE20-392 Cambridge, MA 02139 On Thu, 20 May 2004, Keyma Prince wrote: > I'm trying to draw a label onto the T1 brain by using the "New >

[Freesurfer] New Segmentation

I'm trying to draw a label onto the T1 brain by using the "New Segmentation" tool in TkMedit. When you select a color table shouldn't an additional window appear with the different label options within it? -keyma Keyma Prince Massachusetts Institute of Technology Dep

Re: [Freesurfer] Pial Surface

Is there any benefit to using the white surface for surface area. Why is that the default? -Keyma Keyma Prince Massachusetts Institute of Technology Department of Brain and Cognitive Sciences NE20-392 Cambridge, MA 02139 On Tue, 30 Mar 2004, Bruce Fischl wrote: > yes, the surface you spec

Re: [Freesurfer] Pial Surface

So when you run it with the default ?h.white surface then it is computing the surface area of white matter? I'm confused then on what it is computing for the thickness, is this still the distance between the gray and white matter? -Keyma Keyma Prince Massachusetts Institute of Techn

[Freesurfer] Pial Surface

When you look at the values that are produced by mris_anatomical_stats for surface area, are these values the same as pial surface area? Is the pial surface the same as the inflated surface? -Keyma ___ Freesurfer mailing list [EMAIL PROTECTED] http://ma

[Freesurfer] Map_all_labels

When map_all_labels is run is it using the average7 brain to know where to map the labels onto the surfaces? Also why are the labels (such as the central sulcus) generated by map_all_labels and parcellate_subject different? -Keyma Keyma Prince Massachusetts Institute of Technology Department of