A scheme of investigating the intracellular metabolic fluxes by isotope ¹³C labeling experiments and analyzing the labeling patterns of cellular amino acids by two-dimensional ［¹H-¹³C］ nuclear magnetic resonance spectroscopy was developed. The software package was constructed with a comprehensive and improved isotopomer model, which introduce the concept of Reaction Mapping Matrices(RMM). Thus with a simplified algorithm, the platform is established for quantitating the intracellular flux distribution and investigating the cellular metabolism more efficiently. The metabolic model includes the Embden-Meyerhof-Parnas, the pentose phosphate pathway, the tricarboxylic acid cycle, anaplerotic reaction sequences, some fermentative pathway and pathways involved in amino acid synthesis.