This document provides a user's manual for SAMS (Stochastic Analysis, Modeling, and Simulation) version 2009. SAMS is a software package developed by Colorado State University and the U.S. Bureau of Reclamation to analyze and model stochastic hydrologic time series, such as annual and seasonal streamflow, using parametric and nonparametric methods. The manual describes the capabilities and components of SAMS 2009, which includes data analysis tools, stochastic models for single-site and multi-site data as well as disaggregation models, and generation of synthetic hydrologic time series. Parameter estimation techniques and model testing procedures for the various stochastic models in SAMS 2009 are also outlined.