Molecular Workbench can run more than one simulation on the same page for comparison.
This feature allows you to easily put different models together, and watch them running side-by-side.
The following screenshot shows the comparison of a solid and a liquid in 2D. The average atomic displacements are computed for each model and shown on graphs to quantitatively illustrate the difference of atomic motion in the two phases, in addition to the atomic views represented by the moving balls. The graphs enhance user's observation that atoms in solids vibrate around certain positions, whereas atoms in liquids do not stay around fixed positions. Therefore, the fluidity of liquids can be explained on an atomic basis.