Freesurfer September 2008

freesurfer@nmr.mgh.harvard.edu

70 participants
96 discussions

Cerebellum Segmentations
by Jeff Sadino 03 Sep '08

03 Sep '08

Hello, I am processing a large number of scans with the goal of segmenting the cerebellum into subregions, particularly the Vermis. Without editing each scan individually using tkmedit, what is the best way to achieve this subregion segmentation for a large number of subjects? Thank you in advance, Jeff Sadino JABSOM University of Hawaii at Manoa _________________________________________________________________ Want to do more with Windows Live? Learn “10 hidden secrets” from Jamie. http://windowslive.com/connect/post/jamiethomson.spaces.live.com-Blog-cns!5…

1 0

WM intensity < CSF intensity?
by Juranek, Jenifer 03 Sep '08

03 Sep '08

Hi, I'm running fsv405 on RHEL5. I received the following message and reviewed the input images, but could not spot the problem. Any suggestions about where I should be looking in the T1.mgz? Many Thanks, Jenifer White matter intensity 0 is lower than CSF intensity 14. Please examine input images. Will terminate ... *********************************************** *********************************************** *********************************************** ********************************************************** MRIstripSkull failed. ************************************************************

2 4

Surface area measurement
by Barkay, Gavriel 03 Sep '08

03 Sep '08

Can I do surface area measurement using freesurfer? -- Gavriel Barkay M.D. M.Sc. Psychopharmacology Fellow Office: 317-433-1771 Pager: 317-312-2448

2 1

about white matter segmentation
by abel cruz vadell 02 Sep '08

02 Sep '08

Hi Checking the white matter segmentation of a subject I found the problem atacched (blue arrow in the axial, sagital and coronal views). I used controls points but the problem remains. Any idea? Thanks Abel

2 2

Statistic in Freesurfer
by Massimiliano Calabrese 02 Sep '08

02 Sep '08

Dear Freesurfer users, probably this is for you a very simple question: we would like to know if it has been implemented a tool based on permutation test to compare thickness and volume of different regions. we know that there are similar tools for voxels scale, but we did not know anything of similar for regional anlaysis.(and if this could be useful ) Thank you Massimiliano Calabrese Multiple Sclerosis Centre University of Padova Italy Marco Battaglini Quantitative Neuroimaging Laboratory University of Siena _________________________________________________________________ Stanco della solita finestra? Personalizza la tua Hotmail! http://www.messenger.it/personalizza.html#sfondi

1 0

convert point from anatomical- to functional space
by Steinmann, Iris 01 Sep '08

01 Sep '08

Dear Freesurfers, I have a question concerning the register.dat. In Freesurfer-Wiki I found that sentence: 'The last four lines of register.dat have the values of the registration matrix that converts a location in anatomical space to a location in functional space' I want convert one special point from my high resolution anatomical space (256x256) to my low resolution functional space (64x64). So I want apply the register.dat-Matrix to the Vektor from this point in anatomical space. But why is it an 4x4 Matrix? I supposed that I need an 3x3-matrix for an translation in x,y,z-direction. How can I get this anatomical point in my functional space? Thanks for your answer

2 1

2026

2025

2024

2023

2022

2021

2020

2019

2018

2017

2016

2015

2014

2013

2012

2011

2010

2009

2008

2007

2006

2005

2004

Freesurfer September 2008