[Freesurfer] Cortical surface measurement.

Hello All, Is it possible to find ROI based cortical surface measures using freesurfer? I am interested in manually tracing ROI and then obtaining thickness, surface area and curvature measures for the ROI. Is there a way to do this in freesurfer? Thank you -Dhruman ___

[Freesurfer] Volume measurements.

Hi all, In the aseg.stats file there is a measurement called Brain segmentation volume. Can someone tell me what it is? Is this same as whole brain GM volume? If not is there a way to compute that? -Dhruman ___ Freesurfer mailing list Free

[Freesurfer] Question regarding Outputs

Hello all, The output of mris_anatomical_stats has a measurement called TotalWhiteMatterVolume for each hemisphere. From aseg.stat the measures for cerebellum-white volume and cerebral-white volume for each hemisphere can be obtain, but the sum of both the measures obtained from aseg is le

RE: [Freesurfer] Exporting Anatomical Stats

I have a freesurfer version that was released in Feb. (I think the version is 3.0 dev). I looked in the bin and could not find asegstat2table and aparcstat2table function files. Is it possible for anyone to send those files? Also, will those file be compatible with the version of freesurfer I am us

[Freesurfer] Aseg.stats measurements

Hi all, Can anyone tell me how freesurfer defines Intracranial volume, Brain segmentation volume and Brain mask volume? What is the difference between the 3 measures? -Dhruman ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu htt

[Freesurfer] Edit label

Hi all, I am interested in lobe wise surface measurement. I read Desikan et al. paper to understand that their atlas divides the lobes into different region and freesurfer uses that atlas to gets measurement for each region. Is it possible to load the Desikan label and edit it to fuse all

RE: [Freesurfer] Edit label

Message- From: Rahul Desikan [mailto:[EMAIL PROTECTED] Sent: Thursday 27 July 2006 15:15 To: Goradia, Dhruman D Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Edit label Hi Dhruman, If you are interested in lobe-wise comparisons, you can indeed add up the individual regions of

[Freesurfer] System requirements.

Hello All, I have a P4 1.5 GHZ, 1GB ram, 65GB hard disk running redhat fedora core release 5. I am planning to install the latest version of freesurfer on it. It will be a dedicated system for a small study with the only task of processing the data on freesurfer. Will this work? I understand that

RE: [Freesurfer] CentOS 5.1 and freesurfer and tksurfer

Hi all, I am facing the same problem with CentOS 5 and tksurfer.Is there any fix for this problem? Thank you, -Dhruman -Original Message- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On Behalf Of Nick Schmansky Sent: Tuesday, February 19, 2008 10:03 AM To: [EMAIL PROTECTED] Cc: Freesu

[Freesurfer] recon-all exits with errors

Hello All, I have a library problem when I run recon-all. Recon-all exits with ERROR during the cortribbon step. I am using FC8 x86_64 OS on an Intel Xeon 64 bit machine. I have installed CentOS4-x86_64-v4.0.2 version of freesurfer. The library in question "libexpat.so.0" has been installed and is

[Freesurfer] recon-all exits with error

Hello All, I have a library problem when I run recon-all. Recon-all exits with ERROR during the cortribbon step. I am using FC8 x86_64 OS on an Intel Xeon 64 bit machine. I have installed CentOS4-x86_64-v4.0.2 version of freesurfer. The library in question "libexpat.so.0" has been installed and is

[Freesurfer] Problem with setting segmentation threshold values

Hi, I am interested in changing the white matter low limit for the segmentation step. For this I typed the following in the command prompt:   recon-all –subjid -autorecon2 –seg-wlo   this gave me an error stating that it could not recognize –seg-wlo flag. I was wondering if there is

[Freesurfer] Output of mris_anatomical_stats

Hi, The output of function "mris_anatomical_stats" contains the following measurements: integrated rectified mean curvature, integrated rectified Gaussian curvature, folding index and intrinsic curvature index. Can someone please give me a brief explanation of what these measurements are o

[Freesurfer] mris_preproc file missing in my freesurfer package.

Hi all, I have the following freesurfer version: OS: Mac OS X Platform: Tiger Release type: dev The mris_preproc file is missing. I would appreciate if some one can email me this file. Thank you. Dhruman. ___ Freesurfer mailing lis

RE: [Freesurfer] want to view one segmented subcortical object at a time...

Hello Bruce and all, Is it possible to perform group analysis based only on a particular subcortical region of interest and visualize it? -Dhruman -Original Message- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On Behalf Of Bruce Fischl Sent: Monday 20 March 2006 16:20 To: Shahabuddi

RE: [Freesurfer] Faster and Parallel recon-all

of help then let me know. -Dhruman -Original Message- From: Daniel Goldenholz [mailto:[EMAIL PROTECTED] Sent: Tuesday 21 March 2006 11:25 To: Goradia, Dhruman D Subject: Re: [Freesurfer] Faster and Parallel recon-all Dhruman That's confusing. I think you should take one line of exe