Abstract: To solve the confliction between the security and reliability of physical layer security codes and improve the secrecy rate, a security coding method based on puncturing polar codes is proposed. In order to keep the security and reliability, the confidential information is mapped to the specific input proposition which could be decoded by legal receiver but be equivocal for eavesdropper based on channel polarization theory. By analyzing the check trees of polar codes, the puncturing pattern is designed based on the influences of outputs on confidential information which are described by three parameters. The theoretical analysis and simulation results verify that the proposed method is able to guarantee simultaneously the security and reliability while improving the efficiency of the confidential information.