Panchaganga River is now facing serious problem of pollution and in present situation continuous analysis is needed to control pollution of Panchaganga River. Pollution of Panchaganga River is observed because of disposal of untreated municipal sewage and industrial effluent through various Streams. Time and money for manpower and chemical is needed for continuous sampling work. MATLAB is an interactive software that allows implementation of algorithm, graphics and creation of user interface with other computer languages. MATLAB helps to predict future water quality using present data and helps to save time, manpower and other cost for continuous analysis. Simulation programming techniques are used for model and virtual based experimentation with the help of collected data from field. The simulation environment of river includes several programming techniques, interactive graphic displays and user friendly interface. Simulation helps in environmental research for understanding research problem and helps find out remedial measures on that. There are several software’s available in market for the prediction of river water quality but MATLAB provides easy and convenient user interface in the form of MATLAB GUI (Graphical User Interface).