I was also running an ROI analysis based on the recon-all segmentations so I figured I could use the FA results and skip the process of running through the whole tbss process. I also found dt_recon's ability to determine bvals and bvecs from the dcm without needing to create the txt files that fsl needed made the preprocessing steps simpler and less likely to lead to human error in the process.

Daniel Callow

PhD Student, Neuroscience and Cognitive Science

Exercise for Brain Health Lab

University of Maryland, College Park

ddcc2442@gmail.com

443-254-6298

On Thu, Feb 28, 2019 at 3:05 PM Greve, Douglas N.,Ph.D. <DGREVE@mgh.harvard.edu> wrote:

no idea. If you want to use tbss, why not use FSL to do the dti analysis
from the start?

On 2/26/19 10:27 AM, Daniel Callow wrote:
>
> External Email - Use Caution
>
> Hello,
>
> I am working through dt_recon troubleshooting (One subjects
> registration to anatomical is skewed leading to incorrect masking of
> that subjects FA image). I would like to use the dt_recon's FA outputs
> and input them into FSL's tbss pipeline. My question is are there any
> steps I should take converting or modifying the FA images so they are
> compatible with the tbss pipeline. My intention was to take the
> dt_recon fa or fa-masked into the tbss_1_preproc command?
>
> Are there any considerations I should take into account?
>
> Best
> *Daniel Callow*
> /PhD Student, Neuroscience and Cognitive Science/
> Exercise for Brain Health Lab
> University of Maryland, College Park
> _ddcc2442@gmail.com <mailto:ddcc2442@gmail.com>_
> 443-254-6298
>
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