After doing the Bader charge analysis, using below summed CHGCAR file,
chgsum.pl AECCAR0 AECCAR2
bader CHGCAR -ref CHGCAR_sum
bader net charge on atoms is different, i.e no two atoms have the similar bader net charge which I believe is possible when there is nonuniform charge distribution. But can one use the average bader net charge on a particular atom for comparison?