RE: Particle in a Double well potential: A molecular dynamics toy example using openMM toolkit

So this equation would explain why the yellow dot moves as it moves in a crowd of smaller particles?

No. If the yellow particle was allowed to move freely, Potential surface would be like a flat plane surface. But now if I compel my particle under this curvy potential with two minimas, that is what I am defining by this equation. Great question btw. I should have been more clear in the article. But I hope people read comment section too. :)

By the way, just defining this potential function won't make things alive. That's what the langevin equation is there. That equation gives life to the particle under whatever potential you define.