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Documentation

  • Welcome to folie’s documentation!
  • How-to guides
    • Estimation of overdamped model
    • Analysis of obtained models
    • Models simulations
  • For developper

Examples

  • General examples
    • Overdamped Langevin Estimation
    • Functional set
    • Overdamped Langevin Estimation
    • Hidden Overdamped Langevin Estimation
    • Likelihood functions
    • ABMD biased dynamics
  • Toys models
    • Toys models
      • 1D Biased Double Well
      • 2D Double Well
      • 1D Double Well
      • 2D Biased Double Well
  • Tutorials
    • 1D Double Well estimation
    • 2D Double Well estimation
    • 2D UNBIASED Double Well Potential
    • 2D BIASED Double Well Potential
    • DNA Hairpin
    • Likelihood maximization

Performances

  • Statistical performances
    • Overdamped
    • Overdamped with hidden variables

API docs

  • Data loading
    • folie.Trajectories
  • Models of Langevin dynamics
    • folie.Overdamped
    • folie.BrownianMotion
    • folie.OrnsteinUhlenbeck
    • folie.OverdampedSplines1D
  • Spatial dependence
    • folie.functions.Constant
    • folie.functions.Linear
    • folie.functions.Polynomial
    • folie.functions.Fourier
    • folie.functions.BSplinesFunction
    • folie.functions.sklearnBSplines
    • folie.functions.sklearnTransformer
    • folie.functions.FiniteElement
    • folie.functions.ModelOverlay
    • folie.functions.sklearnWrapper
    • folie.functions.KernelFunction
  • Estimation
    • folie.KramersMoyalEstimator
    • folie.LikelihoodEstimator
    • folie.ELBOEstimator
    • folie.EMEstimator
    • folie.ExactDensity
    • folie.EulerDensity
    • folie.ElerianDensity
    • folie.KesslerDensity
    • folie.DrozdovDensity
  • Analysis
    • folie.analysis.free_energy_profile_1d
    • folie.analysis.mfpt_1d
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Toys models¶

A set examples for 1D/2D double well potential.

1D Biased Double Well

1D Biased Double Well

2D Double Well

2D Double Well

1D Double Well

1D Double Well

2D Biased Double Well

2D Biased Double Well
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1D Biased Double Well
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ABMD biased dynamics
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