use convert 3D to reslice a 2mm input to be 1mm

reslice_with_c3d.sh

root='/Users/ilkay.isik/project_folder_temp/fc_content/MRI_data/lscp_data/derivatives'
input=path/to/2mm_input.nii
output=path_to_1mm_output.nii
ref=path_to_1mm_ref.nii
c3d ${ref} ${input} -int 0 -reslice-identity -o ${output}