Run the harmonization on more than 2 sites?

[ddallmeier]

Is there an option to run the harmonization on multiple target sites at the same time? Or is it necessary to run each pair individually?

[tashrifbillah]

Is there an option to run the harmonization on multiple target sites at the same time?

The program won't do it for your automatically.

Or is it necessary to run each pair individually?

Yes, yet see explanation below:

It is possible to have one reference site but multiple target sites. This branch is designed to take into account the above use case. Still, you have to create different templates for each pair of reference-target sites. Just provide different names to --template argument i.e --template firstPair, --template secondPair, ... and it will organize the templates accordingly. Then you can harmonize different sites providing the proper template directory.

You can get the branch as follows:

cd dMRIharmonization
git pull origin
git checkout warped-in-template

However, if you think your template created using only one pair of reference-target1 sites represents the characteristics of the rest of the target sites i.e. reference-target1 , reference-target2, ... there is nothing stopping you from harmonizing multiple target sites using the scale maps obtained from the first pair. Just run ./harmonization --process ... multiple times.

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