Hi - see the FAQ entry:Cheers.On 3 Sep 2016, at 11:52, Antoine Nasimian <[log in to unmask]> wrote:Hi Steve,
I highly appreciate your response.
I have DTI data aquired using different aquisition parameters ( same b value, but different TE and TR).
I was thinking of kind of normalization for the images permits of including it, regardless the differences in TE, TR in the same analysis (e.g TBSS)
I know aquision parameters like TE can affect FA value. How can I include different FA maps (i.e FA maps generated from DWI aquired using different aquisition parameters) in the same TBSS analysis.
Can intensity normalization be of benifits in here?
Best,
Ant
HiOn 2 Sep 2016, at 12:18, Jon Anderson <[log in to unmask]> wrote:
Dear FSL experts,
I would like to ask the following questions about " intensity normalization in FSL":
1. In which circumstances, intensity normalization (i.e. the flag -inm in the command " fslmaths") is urgent?
I'm not sure what you're asking here, sorry - but maybe the below answer gives you what you need.2. What type of images can be normalized? Are there any benefits of intensity normalization in DTI data?
In general this is NOT done for inputs to TBSS, as the various dtifit outputs (eg FA, MD) are supposed to already be directly comparable across subjects as long as all subjects were acquired in the same way.
Cheers.3. Can I use the flag "-inm "in the command "fslmaths" in the script "tbss_3_postreg" to normalize the images "all_FA" then continue with the rest of the pipeline? I am wondering if the image "all_FA" is 2D or 3D?
Thanks for any comment and for your help!
Jon
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Stephen M. Smith, Professor of Biomedical Engineering
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