conda env create -f atlas_env_simple.yml
merge_atlases.py: merge schaefer atlases
optional arguments:
-h, --help show this help message and exit
-a ATLASES [ATLASES ...], --atlases ATLASES [ATLASES ...]
-r REFERENCE, --reference REFERENCE
-t TSV, --tsv TSV
-n NAMES [NAMES ...], --names NAMES [NAMES ...]
./merge_atlas.py \
-a Schaefer2018_400Parcels_17Networks_order_FSLMNI152_2mm.nii.gz \
Choi2012_17Networks_MNI152_FreeSurferConformed2mm_TightMask.nii.gz \
Buckner2011_17Networks_MNI152_FreeSurferConformed1mm_TightMask.nii.gz \
-r ../combined_atlas_3mm.nii.gz \
-t ../../schaefer_parcel-400_network-17.tsv \
-n Striatal Cerebellar
Note: -r
sets the voxel size of the output atlas.