[Freesurfer] Analysis ROI between two levels

2013-01-12 Thread xiangbo_2010
发送自我的HTC One SU - Forwarded message - 发件人: "xiangbo_2010" 收件人: "MCLAREN, Donald" 抄送: 主题: [Freesurfer] contrast matrix 日期: 周二, 12 月 11 日, 2012 年 20:08 Dear experts I had obtained a ROI through the interaction between factor 1(A,B) and factor 2(C,D,E), the following: I want to detect

[Freesurfer] Freesurfer fails

2013-01-12 Thread Franklin, Crystal G
Freesurfer, I have been running a group of subjects through recon-all and some of the subjects are failing at the very beginning of the process and I am not sure why. The images look fine, but I keep getting the following error: #@# Talairach Failure Detection Fri Dec 7 10:54:57 CST 2012 /A

Re: [Freesurfer] error: could not read 65536 bytes at slice 76 in skull stripping process

2013-01-12 Thread Bruce Fischl
or try deleting the T1.mgz and running recon-all -make all cheers Bruce On Sat, 12 Jan 2013, Louis Nicholas Vinke wrote: > Hi Sandra, > Have you taken a look at the T1.mgz volume to see if there is anything > peculiar? > -Louis > > On Wed, 9 Jan 2013, Sandra Preissler wrote: > >> Hi Bruce, >> >>

Re: [Freesurfer] QA Tools Snaps Scrambled - Follow up

2013-01-12 Thread Louis Nicholas Vinke
Hi Wil, Well the workaround is to use the SaveTIFF command instead of the SaveRGB command in the tcl script which QATools uses for tkmedit snapshots. There are a couple lines in the shell scripts that needs to be changed as well. Which version of the QATools do you have 1.1? -Louis On Thu, 1

Re: [Freesurfer] error: could not read 65536 bytes at slice 76 in skull stripping process

2013-01-12 Thread Louis Nicholas Vinke
Hi Sandra, Have you taken a look at the T1.mgz volume to see if there is anything peculiar? -Louis On Wed, 9 Jan 2013, Sandra Preissler wrote: > Hi Bruce, > > Thanks for your fast reply. > I checked it again and there is 131 GB disk space free on the device. > > Best regards > Sandra > > Zitat v

[Freesurfer] Registering individual subjects to MNI152

2013-01-12 Thread Shantanu Ghosh
Dear freesurfer experts, I have .sig maps of cortical thickness, curvature and sulcal depth measures from my dataset (two groups: patient, control). I have the following questions: 1) I want to overlay all three maps simultaneously on an average subject created from all subjects' brains, with dif

Re: [Freesurfer] recon-all process on brain regions of interest

2013-01-12 Thread Douglas Greve
you have to analyze the whole brain and then limit the analysis when you analyze the group. doug On 1/12/13 5:38 AM, ZhiLiangLong wrote: Hi everyone: I met problem about the recon-all process. I got some brain regions showing group-differences of activation in task. Now, i want to com

[Freesurfer] recon-all process on brain regions of interest

2013-01-12 Thread ZhiLiangLong
Hi everyone: I met problem about the recon-all process. I got some brain regions showing group-differences of activation in task. Now, i want to compare the difference of cortical thickness on these brain regions. I prefer to limit the compution of cortical thickness on my regions of int