By LDOS in this context, do you mean the local density of states as computed by ATK using
calculateLocalDensityOfStates(), for a given energy (E=0 for the Fermi level) and (kx,ky)?
If so, the object returned by the function has a method
toArray() which returns a NumPy array. You can directly take the array for spin up minus the one for spin down.
How to proceed from there depends a bit on what you want to do with it, plot it, integrate it, export it, etc.