This study discusses the comparison of forecasting time series data between the Autoregressive Integrated Moving Average (ARIMA) method and the multi input transfer function model. ARIMA method is one of the most frequently used methods for forecasting time series data. Meanwhile, the transfer function model is a combination of the characteristics of multiple regression analysis with the characteristics of the ARIMA time series. Meanwhile, the multi input transfer function model is a transfer function model that has input variables of more than two time series. The application of these two methods is carried out on rainfall data from January 2012 to December 2017 in Manokwari Regency, West Papua Province. The input variables used are temperature, humidity, solar radiation, air pressure, and wind speed variables. The results showed the best ARIMA model was ARIMA (1,0,0) (2,0,0) 12 with an AIC value of 910.07, while for the best multi input transfer function model was ARIMA (1,1,0) AIC value of 898.24. Between the two methods, the best model used to forecast rainfall in Manokwari Regency, West Papua Province is the multi-input transfer function model (1,1,0).