The invention discloses a livestock breeding waste water treatment method. The method comprises the steps that a waste water treatment system comprising a methane tank, a solid-liquid separator, a regulating tank, a sand filter tank, a granule bacterium algae reaction tank and a sedimentation tank is built; in the granule bacterium algae reaction tank, under the condition suitable for culture, an IC internal circulation vortex flow is formed in the bacteria and algae reaction tank by changing the hydraulic condition, the action of the vortex flow enable microalgae and activated sludge to be mutually wrapped together, and bacteria and algae granule micelle which takes sludge as the core and is wrapped by the microalgae is formed finally. The granule bacterium algae system can greatly increase the biomass of the algae reaction tank, and the livestock breeding waste water treatment efficiency is improved; meanwhile, good settling performance is achieved, the advantages of rapid algae-water separation and the like can be achieved through an ordinary gravity sedimentation tank, and a good treatment effect on treating livestock breeding waste water which is high in nitrogen and phosphorus content is achieved.