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Objective comparison of methods to decode anomalous diffusion

Author

Listed:
  • Gorka Muñoz-Gil

    (The Barcelona Institute of Science and Technology)

  • Giovanni Volpe

    (University of Gothenburg)

  • Miguel Angel Garcia-March

    (Universitat Politècnica de València)

  • Erez Aghion

    (Max Planck Institute for the Physics of Complex Systems)

  • Aykut Argun

    (University of Gothenburg)

  • Chang Beom Hong

    (Pohang University of Science and Technology)

  • Tom Bland

    (The Francis Crick Institute)

  • Stefano Bo

    (Max Planck Institute for the Physics of Complex Systems)

  • J. Alberto Conejero

    (Universitat Politècnica de València)

  • Nicolás Firbas

    (Universitat Politècnica de València)

  • Òscar Garibo i Orts

    (Universitat Politècnica de València)

  • Alessia Gentili

    (University College London)

  • Zihan Huang

    (Hunan University)

  • Jae-Hyung Jeon

    (Pohang University of Science and Technology)

  • Hélène Kabbech

    (Erasmus University Medical Center)

  • Yeongjin Kim

    (Pohang University of Science and Technology)

  • Patrycja Kowalek

    (Wrocław University of Science and Technology)

  • Diego Krapf

    (Colorado State University)

  • Hanna Loch-Olszewska

    (Wrocław University of Science and Technology)

  • Michael A. Lomholt

    (University of Southern Denmark)

  • Jean-Baptiste Masson

    (Institut Pasteur, Université de Paris, USR 3756 (C3BI/DBC) & Neuroscience department CNRS UMR 3751, Decision and Bayesian Computation lab)

  • Philipp G. Meyer

    (Max Planck Institute for the Physics of Complex Systems)

  • Seongyu Park

    (Pohang University of Science and Technology)

  • Borja Requena

    (The Barcelona Institute of Science and Technology)

  • Ihor Smal

    (Erasmus University Medical Center)

  • Taegeun Song

    (Pohang University of Science and Technology
    Korea Institute for Advanced Study
    Kongju National University)

  • Janusz Szwabiński

    (Wrocław University of Science and Technology)

  • Samudrajit Thapa

    (University of Potsdam
    Tel Aviv University
    Tel Aviv University)

  • Hippolyte Verdier

    (Institut Pasteur, Université de Paris, USR 3756 (C3BI/DBC) & Neuroscience department CNRS UMR 3751, Decision and Bayesian Computation lab)

  • Giorgio Volpe

    (University College London)

  • Artur Widera

    (Technische Universität Kaiserslautern)

  • Maciej Lewenstein

    (The Barcelona Institute of Science and Technology
    ICREA)

  • Ralf Metzler

    (University of Potsdam)

  • Carlo Manzo

    (The Barcelona Institute of Science and Technology
    Universitat de Vic – Universitat Central de Catalunya (UVic-UCC))

Abstract

Deviations from Brownian motion leading to anomalous diffusion are found in transport dynamics from quantum physics to life sciences. The characterization of anomalous diffusion from the measurement of an individual trajectory is a challenging task, which traditionally relies on calculating the trajectory mean squared displacement. However, this approach breaks down for cases of practical interest, e.g., short or noisy trajectories, heterogeneous behaviour, or non-ergodic processes. Recently, several new approaches have been proposed, mostly building on the ongoing machine-learning revolution. To perform an objective comparison of methods, we gathered the community and organized an open competition, the Anomalous Diffusion challenge (AnDi). Participating teams applied their algorithms to a commonly-defined dataset including diverse conditions. Although no single method performed best across all scenarios, machine-learning-based approaches achieved superior performance for all tasks. The discussion of the challenge results provides practical advice for users and a benchmark for developers.

Suggested Citation

  • Gorka Muñoz-Gil & Giovanni Volpe & Miguel Angel Garcia-March & Erez Aghion & Aykut Argun & Chang Beom Hong & Tom Bland & Stefano Bo & J. Alberto Conejero & Nicolás Firbas & Òscar Garibo i Orts & Aless, 2021. "Objective comparison of methods to decode anomalous diffusion," Nature Communications, Nature, vol. 12(1), pages 1-16, December.
  • Handle: RePEc:nat:natcom:v:12:y:2021:i:1:d:10.1038_s41467-021-26320-w
    DOI: 10.1038/s41467-021-26320-w
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    References listed on IDEAS

    as
    1. Lijian Chen & Kevin E. Bassler & Joseph L. McCauley & Gemunu H. Gunaratne, 2017. "Anomalous Scaling of Stochastic Processes and the Moses Effect," Papers 1704.05818, arXiv.org.
    2. Yann Lanoiselée & Nicolas Moutal & Denis S. Grebenkov, 2018. "Diffusion-limited reactions in dynamic heterogeneous media," Nature Communications, Nature, vol. 9(1), pages 1-16, December.
    3. Eldad Kepten & Aleksander Weron & Grzegorz Sikora & Krzysztof Burnecki & Yuval Garini, 2015. "Guidelines for the Fitting of Anomalous Diffusion Mean Square Displacement Graphs from Single Particle Tracking Experiments," PLOS ONE, Public Library of Science, vol. 10(2), pages 1-10, February.
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    Cited by:

    1. dos Santos, M.A.F. & Colombo, E.H. & Anteneodo, C., 2021. "Random diffusivity scenarios behind anomalous non-Gaussian diffusion," Chaos, Solitons & Fractals, Elsevier, vol. 152(C).
    2. Kelty-Stephen, Damian G. & Mangalam, Madhur, 2023. "Multifractal descriptors ergodically characterize non-ergodic multiplicative cascade processes," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 617(C).
    3. Shi, Hong-Da & Du, Lu-Chun & Huang, Fei-Jie & Guo, Wei, 2022. "Collective topological active particles: Non-ergodic superdiffusion and ageing in complex environments," Chaos, Solitons & Fractals, Elsevier, vol. 157(C).
    4. Wang, Xiaolong & Feng, Jing & Liu, Qi & Li, Yongge & Xu, Yong, 2022. "Neural network-based parameter estimation of stochastic differential equations driven by Lévy noise," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 606(C).
    5. Kelty-Stephen, Damian G. & Mangalam, Madhur, 2022. "Fractal and multifractal descriptors restore ergodicity broken by non-Gaussianity in time series," Chaos, Solitons & Fractals, Elsevier, vol. 163(C).
    6. Janczura, Joanna & Burnecki, Krzysztof & Muszkieta, Monika & Stanislavsky, Aleksander & Weron, Aleksander, 2022. "Classification of random trajectories based on the fractional Lévy stable motion," Chaos, Solitons & Fractals, Elsevier, vol. 154(C).
    7. Qiao, Le & Ilow, Nicholas & Ignacio, Maxime & Slater, Gary W., 2022. "An empirical method to characterize displacement distribution functions for anomalous and transient diffusion," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 604(C).
    8. Guo, Wei & Liu, Ying-Zhou & Huang, Fei-Jie & Shi, Hong-Da & Du, Lu-Chun, 2023. "Brownian particles in a periodic potential corrugated by disorder: Anomalous diffusion and ergodicity breaking," Chaos, Solitons & Fractals, Elsevier, vol. 174(C).

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