[Freesurfer] GLM analysis - covariates

2011-08-24 Thread Jenessa Price
I'm examining differences in cortical thickness in a sample of drug users and non-users. From the literature, it appears that the 2 covariates I should use for the GLM analysis will be gender and age. Other researchers have examined other possible covariates (like age of first use, # past year us

[Freesurfer] submitting manual Talairached data into FreeSurfer pipeline

2010-04-08 Thread Jenessa Price
Hello, We've noticed that FreeSurfer has been doing a poor job with our data on the first few steps prior to segmentation. All of our data has been aligned and Talairached manually for another project, and we were wondering if it is possible to submit that data into the FreeSurfer pipeline so tha

[Freesurfer] converting nifti to .mgz files - command

2010-02-17 Thread Jenessa Price
Can you please tell me the exact mri_convert command for converting nifti to .mgz? We had originally done it using .img/.hdr files, but there were errors with the recon because the orientation wasn't correct. We then were able to get a correct orientation using the .nii format but could not conve