A method and a system for analyzing a shot of a biological sample by a radiation particle in a biological stack are disclosed. The method includes at least acquiring coordinate data of a biological sample in a biostack to be analyzed and detection data of a radiation particle that hits the biological sample; obtaining the diameter r of the biological sample in the biostack to be analyzed, the thickness d of a biostack substrate and the incident plane of the radiation particles in the biostack; calculating a motion track of each of the radiation particles in the biological sample in the biological stack and the distance L between the center of the biological sample and the trajectory of the radiation particle, and the coordinates of the intersection of the radiation particle and the two planes; judging the situation that the radiation particle hits the biological sample according to L and calculating the coordinates of the biological sample hit by the radiation particle; and calculating and displaying the status that the radiation particle hits the biological sample. The present invention provides effective means and assistive technologies for data processing, sample screening and data visualization for the study of biological samples in a space flight biological stack.