At present, mathematical statistics methods are widely used to study natural processes, allowing to create a mathematical model of the process, which implies the possibility of predicting its state at a certain point in time. At the same time, by setting the conditions of input variables and external influences on the process, the researcher can estimate the result of such an impact on the state of this process. This is especially important in the study of biomedical processes, which are complex multifactorial systems with nonlinear connections due to the peculiarities of the functioning of a biological object - a patient. The use of specialized software significantly simplifies these studies. However, the features of obtaining and using the initial data for such an analysis largely depend on the method of medical diagnostics and hardware used for this purpose. The authors considered in the work the features of using the MATLAB software environment for solving problems in the field of biomedical modeling and predicting the dependence of the patient’s condition on the influence of external factors. At the same time, the main attention is paid to the features of the preparation and use of statistical data of biomedical processes and the technology of using the MATLAB software environment for problems of this segment of mathematical statistics. The authors studied the types and kinds of models of biomedical processes and compared their capabilities in terms of the quality of modeling results using the example of using natural data on the immunoresistance of patients.