Microscopic Gating
  • Theory Background
    • Grand Canonical Framework
    • Langmuir Adsorption Isotherm
    • Symmetric Gating Function
    • Multivalency Statistics
    • Gate Open/Closed Probabilities
    • Free Energy Landscape
    • Kramers Escape Rate
    • Poisson-Averaged Escape Rate
    • Effective Diffusion Coefficient
    • Entropic Widening (Network Softening)
    • Capture Island Phase Boundaries
    • Parameter Dictionary
    • Key References

API Reference

  • Adsorption Isotherms
    • Langmuir Isotherm
      • LangmuirIsotherm
        • LangmuirIsotherm.K
        • LangmuirIsotherm.theta()
        • LangmuirIsotherm.__init__()
    • Hill Isotherm
      • HillIsotherm
        • HillIsotherm.K
        • HillIsotherm.n
        • HillIsotherm.theta()
        • HillIsotherm.__init__()
    • Theory Background
  • Gating Functions
    • Symmetric Gating
      • SymmetricGating
        • SymmetricGating.isotherm
        • SymmetricGating.G()
        • SymmetricGating.phi_star()
        • SymmetricGating.__init__()
    • Asymmetric Gating
      • AsymmetricGating
        • AsymmetricGating.isotherm_P
        • AsymmetricGating.isotherm_N
        • AsymmetricGating.G()
        • AsymmetricGating.__init__()
    • Theory Background
      • Symmetric Gating
      • Asymmetric Gating
  • Bridge Statistics
    • Bridge Count Model
      • BridgeCountModel
        • BridgeCountModel.site_pairs
        • BridgeCountModel.lambda_poisson()
        • BridgeCountModel.mean()
        • BridgeCountModel.var_binomial()
        • BridgeCountModel.__init__()
    • Gate Model
      • GateModel
        • GateModel.P_open()
        • GateModel.P_closed()
        • GateModel.__init__()
    • Theory Background
      • Gate Open Probability
      • Gate Closed Probability
  • Transport Models
    • Jump Diffusion
      • JumpDiffusion
        • JumpDiffusion.step_length
        • JumpDiffusion.dim
        • JumpDiffusion.tau_res()
        • JumpDiffusion.D_eff()
        • JumpDiffusion.__init__()
    • Poisson Escape Averaging
      • PoissonEscapeAveraging
        • PoissonEscapeAveraging.kesc_closed_form()
        • PoissonEscapeAveraging.kesc_sum()
        • PoissonEscapeAveraging.__init__()
    • Concentration Dependent Diffusion
      • ConcentrationDependentDiffusion
        • ConcentrationDependentDiffusion.beta
        • ConcentrationDependentDiffusion.D_free
        • ConcentrationDependentDiffusion.epsilon_eff
        • ConcentrationDependentDiffusion.D_eff()
        • ConcentrationDependentDiffusion.__init__()
    • Theory Background
      • Jump Diffusion Mapping
      • Poisson Averaging
      • Concentration-Dependent Diffusion
  • Phase Boundaries
    • Dome Phase Boundaries
      • DomePhaseBoundaries
        • DomePhaseBoundaries.K
        • DomePhaseBoundaries.n
        • DomePhaseBoundaries.t_solutions()
        • DomePhaseBoundaries.phi_solutions()
        • DomePhaseBoundaries.__init__()
    • Capture Island Window
      • CaptureIslandWindow
        • CaptureIslandWindow.lambda0
        • CaptureIslandWindow.boundaries
        • CaptureIslandWindow.exists()
        • CaptureIslandWindow.g_from_lambda()
        • CaptureIslandWindow.phi_intervals_for_g_band()
        • CaptureIslandWindow.__init__()
    • Theory Background
      • Dome-Shaped Phase Boundaries
      • Capture Islands
  • Unified Phase Model
    • Transport Type
      • TransportType
        • TransportType.ENHANCEMENT
        • TransportType.SUPPRESSION
        • TransportType.CRITICAL
    • Unified Control Parameters
      • UnifiedControlParameters
        • UnifiedControlParameters.beta
        • UnifiedControlParameters.kappa0
        • UnifiedControlParameters.x_c
        • UnifiedControlParameters.chi_kappa
        • UnifiedControlParameters.lambda0
        • UnifiedControlParameters.epsilon_eff
        • UnifiedControlParameters.A()
        • UnifiedControlParameters.Gamma()
        • UnifiedControlParameters.transport_type()
        • UnifiedControlParameters.__init__()
    • Unified Model
      • UnifiedModel
        • UnifiedModel.renorm
        • UnifiedModel.control
        • UnifiedModel.D_star
        • UnifiedModel.tau_star
        • UnifiedModel.Deff()
        • UnifiedModel.__init__()
    • Suppression Capture Island
      • SuppressionCaptureIsland
        • SuppressionCaptureIsland.boundaries
        • SuppressionCaptureIsland.control
        • SuppressionCaptureIsland.tau_star
        • SuppressionCaptureIsland.lambda_bounds()
        • SuppressionCaptureIsland.concentration_intervals()
        • SuppressionCaptureIsland.__init__()
    • Theory Background
  • Core Model
    • Microscopic Gating Model
      • MicroscopicGatingModel
        • MicroscopicGatingModel.gating
        • MicroscopicGatingModel.contact
        • MicroscopicGatingModel.kappa_B
        • MicroscopicGatingModel.site_pairs
        • MicroscopicGatingModel.P_bridge()
        • MicroscopicGatingModel.lambda_()
        • MicroscopicGatingModel.P_open()
        • MicroscopicGatingModel.P_closed()
        • MicroscopicGatingModel.__init__()
    • Usage Example
    • Theory
  • Type Definitions
    • Type Aliases
      • ArrayLike
    • Protocols
      • Isotherm
        • Isotherm.theta()
        • Isotherm.__init__()
      • ContactProbability
        • ContactProbability.mean_contact()
        • ContactProbability.__init__()
    • Data Classes
      • SitePairCount
        • SitePairCount.N_pair
        • SitePairCount.M
        • SitePairCount.N_acc
        • SitePairCount.__init__()
    • Type Hierarchy
Microscopic Gating
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