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cassianobecker / dnn

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Finalize template for HCP data #24

Open lindenmp opened 4 years ago

lindenmp commented 4 years ago

Currently we're using 2mm/1mm FA template from FSL. Would be good to use a template that is in the same res as HCP DWI data (1.25mm)

lindenmp commented 4 years ago

I have created a 1.25mm FA template we can use and added it to dataset/hcp/res/templates/ Also, we can now choose between an inclusive white matter mask (e.g., FMRIB58_FA-mask_125mm_edit.nii.gz) and one restricted to the FA skeleton (e.g., FMRIB58_FA-skeleton_125mm.nii,gz). The default in dataset/hcp/scripts/process/conf/args.ini is now set to the inclusive white matter mask:

[TEMPLATE]
folder = /Users/lindenmp/Dropbox/Work/ResProjects/dnn/dataset/hcp/res/templates
template = FMRIB58_FA_125mm.nii.gz
mask = FMRIB58_FA-mask_125mm_edit.nii.gz

Do we do need to add this to experiments/hcp/conf/args.ini as well??