anchor.diff:  |
   * \(\Gamma_T \sim \Delta t k_B T \sim {10}^{-5} k_B T\)
   * Every timestep
  -* Correlated: satisfy FDT
  -* Gaussian distribution
  -* Balanced by \(-\gamma \vec v\)
  +* Mimic "bumping into water molecules"
  +** Correlated: satisfy Fluctuation-Dissipation Theorem
  +** Gaussian distribution
  +** Balanced by the drag force \(-\gamma \vec v\)
   |
   * \(0 \le E_k \le 20 k_B T\)
   * Instantaneous
  
positive.code: \]
  ** WCA potential / repulsive Lennard-Jones for \(U\)
  ** Damping \(\gamma\) to simulate solution viscosity
  ** Random, instantaneous "kicks" to the particles
  *** \(\vec \Gamma_T\) for the thermostat; balanced by \(\gamma\)
  *** \(\vec \Gamma_k\) for metabolism
  
  === Random Kicks
  
  
negative.code: * Particles in H~2~O~2~ move much farther
  --
  
  == Active Particle Simulations
  
  * Metabolic activity does not significantly raise the temperature of the cell (right?)
  * ATP, the main energy source of metabolism, has energy \(E_\mathrm{ATP} \sim 20 k_B T\)
  