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Objective comparison of methods to decode anomalous diffusion

Authors: Diego Krapf; Jae-Hyung Jeon; Alessia Gentili; Hippolyte Verdier; Janusz Szwabiński; Ihor Smal; Stefano Bo; +31 Authors

Objective comparison of methods to decode anomalous diffusion

Abstract

AbstractDeviations 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.

Countries
United Kingdom, Netherlands, Denmark
Keywords

Model organisms, Science, FOS: Physical sciences, Condensed Matter - Soft Condensed Matter, Quantitative Biology - Quantitative Methods, Article, Imaging, Single-molecule biophysics, Stochastic processes, Physics - Biological Physics, Quantitative Methods (q-bio.QM), Computational & Systems Biology, Q, Cell Biology, Biological Physics (physics.bio-ph), Physics - Data Analysis, Statistics and Probability, FOS: Biological sciences, Cell Cycle & Chromosomes, Soft Condensed Matter (cond-mat.soft), Statistical physics, Biological physics, Software, Data Analysis, Statistics and Probability (physics.data-an), Developmental Biology

  • BIP!
    Impact byBIP!
    citations
    This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
    179
    popularity
    This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
    Top 1%
    influence
    This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
    Top 10%
    impulse
    This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
    Top 0.1%
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citations
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
179
Top 1%
Top 10%
Top 0.1%
Green
gold