Abstract: The pebble bed high temperature gas-cooled reactor is one of the major types of reactors developed by Chinese nuclear technology. The statistical analysis for packing density in the pebble bed is an important issue of physical-thermal calculation and safety analysis. Aimed to this problem, a new kind of method was set up to solve this problem. Compared with the traditional lattice-fill method and the experiment, its efficiency and accuracy were verified, while helping to find out the best length of unit in the traditional lattice-fill method. This method was used to analyze the boundary effects observed by experiments.