Re: [Freesurfer] set path for BBR

2013-03-01 Thread Chen, Xiaoyan
their own!). You'll need to ask them about it. I'll cc >> MJ so he can chime in. >> >> cheers >> Bruce >> >> >> >> >> On Fri, 1 Mar 2013, Chen, Xiaoyan wrote: >> >>> Doug, >>> epi_reg is using BBregister with F

Re: [Freesurfer] set path for BBR

2013-03-01 Thread Chen, Xiaoyan
@nmr.mgh.harvard.edu] Sent: Friday, March 01, 2013 2:22 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] set path for BBR what is epi_reg? Is that an FS program? On 03/01/2013 02:19 PM, Chen, Xiaoyan wrote: > Hi, > > If I want to use epi_reg, what do I need to do for the enviro

[Freesurfer] set path for BBR

2013-03-01 Thread Chen, Xiaoyan
Hi, If I want to use epi_reg, what do I need to do for the environment in fsl? It says that it's not recognizing the function bbr. How do find the path to BBR in /usr/pubsw? Thank you very much. Helen ___ Freesurfer mailing list Freesurfer@nmr.mgh.h

Re: [Freesurfer] bbregister with SPM

2013-03-01 Thread Chen, Xiaoyan
ine. > Also note that if you are using SPM8, make sure to added --spm-nii or > else you will get LR reversals. > doug > > On 02/28/2013 04:24 PM, Chen, Xiaoyan wrote: >> Dear freesurfer experts, >> I have a question regarding how

[Freesurfer] bbregister with SPM

2013-02-28 Thread Chen, Xiaoyan
Dear freesurfer experts, I have a question regarding how to incorporating bbregister coregistered mean image into the SPM batch. After realignment step, I convert the mean functional image from the analyze format to nii format (to avoid flipping brain using b

[Freesurfer] flip brain

2012-11-20 Thread Chen, Xiaoyan
Dear Freesurfer experts, I have a general question regarding data analysis. Our group has collected data from patients with OA, some of them received treatment on their left leg, some of them on their right leg. We would like to flip the brain for the people t

[Freesurfer] mri_convert

2012-07-03 Thread Chen, Xiaoyan
Hi, I have the data from one of our collaborators. They are dicom files, and they are collected from GE. I try to use mri_convert to convert the files from dicom to nifti. However, the following error shows up. mri_convert 1.2.840.113619.2.135.2025.3762570.5144.1309404440.95.dcm 1.2.8