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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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Data loading¶

Loading trajectories¶

Trajectories([dt])

Set of trajectories
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folie.Trajectories
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Overdamped with hidden variables
Copyright © 2023, Hadrien Vroylandt
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  • Data loading
    • Loading trajectories