System dynamics validation and analysis methods must be consistent with some
unique defining properties of system dynamics. Very briefly, these properties
stem from the fact that system dynamics models are causal descriptive models
and they are designed for long term policy analysis and design objectives. 
One of the important results is the fact that system dynamics validity consists
of two very different types: structural and behavioral. We present two different
validity testing software developed at Boğaziçi University to assist with indirect structure testing (SiS) and behavior pattern testing (BTS II). SiS software does automatic dynamic pattern recognition and indirect structure testing. Our behavior pattern testing (BTS II) software estimates and compares
the major dynamic pattern components of the simulated and actual dynamic behaviors. These pattern components are: the trends, periods of oscillations (single or multiple), phases of oscillations, the amplitudes (constant or time-varying), average values, variances (or higher order moments) and finally
a single overall discrepancy measure (U).  Another issue in dynamic simulation
methodology is parameter calibration, assuming that the structure of simulation
model constructed by the user is valid. SiS software also does automated parameter calibration with respect to a given (desired) dynamic pattern. This particular feature can also be used in policy analysis and improvement design.