Kinetic gas model
This simulation enacts the kinetic theory of gases - first proposed by Daniel Bernoulli in the 1730s, but not generally accepted until more than a century later.
He suggested that gases are composed of countless millions of tiny particles moving randomly through empty space (the velocity of each gas molecule is shown with a blue arrow in the simulation), bouncing elastically off each other and other objects. The pressure exerted by a gas is the sum of the impact of these collisions (each shown with a red arrow). The smaller the volume a given number of particles occupy, the greater the concentration of collisions, and the higher the gas pressure.
Bernoulli conceived of heat, not as a separate entity, but just as the motion of particles. So the higher the gas temperature, the faster the molecules move, hitting objects more often and with a greater impact, and thus exerting a higher pressure.
This simulation puts the kinetic theory of gases into practice - albeit with just a few particles - allowing you to experiment with a model of a gas in the same way you would a real one. But for Bernoulli his theory was a conceptual model that could be used to work out formulae predicting how such a gas would behave - an analytical rather than an experimental approach. This predicted "ideal gas" behaviour could then be compared to the behaviour of real gases.
In deriving the gas laws from Bernoulli's kinetic gas model certain assumptions are made about the of the behaviour of the molecules of this "perfect" or "ideal" gas; that the molecules are identical tiny spheres occupying negligible volume, travelling in straight lines, with no force exterted on them except in perfectly elastic collisions (no KE lost or gained) with other molecules or the container walls.
This simulation departs from this ideal in that the molecules have a significant size - allowing a reasonable rate of collisions and exchange of kinetic energy between molecules. (Also, the speed distribution resulting from this 2D simulation differs slightly from a more realistic 3D simulation.)
Real gases too depart from the ideal (in that gas molecules occupy space and have some attraction to each other) but give a good approximation to perfect gas behaviour at high temperature and low pressure. The Van de Waals equation of state makes adjustments to the ideal gas law to take account of the properties of "real" gas molecules - giving better agreement with the behaviour of real gases at lower temperatures and higher pressures.

Kinetic gas theory links:
Kinetic gas theory: a brief intro
derivation1 derivation2 derivation3
Perfect gas assumptions and derivation
Early theories of gases
History of gas laws
Van de Waals equation of state1
Van de Waals equation of state2