The respiratory system maintains homeostatic levels of oxygen (O2) and carbon dioxide (CO2) in the body through rapid and efficient regulation of frequency and dept (tidal volume) of breathing. The use of common marmoset (Callithrix jacchus), a New World non-human primate (NHP) model, in neuroscience is increasing, however, the data on their breathing is limited and their respiratory behaviors have yet to be characterized. Using Whole-body Plethysmography in room air as well as in hypoxic (low O2) and hypercapnic (high CO2) conditions, we sought to define breathing behaviors in an awake, freely behaving marmosets. Additionally, we instituted and optimized an analysis toolkit for unsupervised analysis of the respiratory activities in common marmoset. Our findings indicate that marmoset’s exposure to hypoxia decreased metabolic rate and increased sigh rate. However, the hypoxic condition did not augment the ventilatory response as reported in other animals. Hypercapnia, on the other hand, increased both the frequency and tidal volume as expected. In this study, we shed light on the breathing behaviors of common marmosets in a variety of O2 and CO2 conditions to further understand the breathing behaviors in NHPs.