Hi Saad,
Thank you very much for the suggestion.
Kindly do you mean applying the command on the raw DWI data:
fslmaths <DWI.nii.gz > -kernel gauss 2.55 -fmean <DWI_sm6mm> -odt float
Then running FSL/DTIFIT
Thank you very much !
Jon
Hi - it’s preferable to apply your smoothing to the diffusion tensor rather than the derived maps. You can get the tensor from DTIFIT using —save_tensor, and the maps from the smoothed tensor with fslmaths —tensor_decomp.
Cheers,
Saad
On 31 Jul 2016, at 09:31, Anderson M. Winkler <[log in to unmask]> wrote:
Hi Jon,
It's possible to apply smoothing but generally one prefers less smoothing. Why do you think it would be useful?
All the best,
Anderson
On 30 July 2016 at 12:43, Jon Anderson <[log in to unmask]> wrote:
Dear experts,
Can guassian smoothing be used on FA maps?
I have diffusion maps ( FA, MD, AD, and RD) derived from the FSL pre processing pipeline using the tool ( FDT).
I am thinking of applying the following command on FA, MD, AD and RD
fslmaths <DTI_map.nii.gz > -kernel gauss 2.55 -fmean <DTI_map_sm6mm> -odt float
Can smoothing be used on DTI maps then including these smoothed maps in further analyses (e.g. TBSS)
Thank you
Jon
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