the anomalous diffusion challenge

News

 

29/10/2021

The results of the AnDi challenge 2020 are now published in the article: Muñoz-Gil et al. Objective comparison of methods to decode anomalous diffusion, Nature Communications 12:6253 (2021).

 

01/09/2021

Stay tuned! We are currently organizing the 2nd edition of the AnDi challenge (Results of the first edition can be found here.)

 

 

 

 

 

Perspective

 

Since Albert Einstein provided a theoretical foundation for Robert Brown’s observation of the movement of particles within pollen grains suspended in water, significant deviations from the laws of Brownian motion have been uncovered in a variety of animate and inanimate systems, from biology to the stock market. Anomalous diffusion, as it has come to be called, is a widespread phenomenon connected to non-equilibrium phenomena, flows of energy and information, and transport in living systems. Just focusing on life sciences, identifying its underlying mechanism is a crucial step to understanding, e.g., the motion of sub-cellular components, the uptake of drugs, nonrandom distributions and lateral segregation of plasma membrane components, and the role of chromatin diffusion in gene regulation.

andy challenge
andy challenge
andy challenge
 

However, the measurement of these properties from the data analysis of trajectories is often limited, especially for trajectories that are short, irregularly sampled, or featuring mixed behaviors. In the last years, several methods have been proposed to quantify anomalous diffusion, going beyond the classical calculation of the mean squared displacement. The ultimate goal is to provide a computational tool to be used conventionally in experiments from a large variety of fields (we have already applied it to ultracold atoms, membrane cells, etc) for which the short, irregularly sampled, mixed trajectories measured hinder to characterize the kind of diffusion with the traditional averaged strategies.

 

 

 

Our Twitter

 

Version 2.0 of the andi_datasets #python library is live!

We have added:
- new diffusion models
- tools to make trajectories resemble better experimental datasets
- analysis functions to characterize diffusion
- an integration with @DeepTrackAI

➡️https://andichallenge.github.io/andi_datasets/

New stable release of DeepTrack2 1.5.0!
https://github.com/softmatterlab/DeepTrack2/releases/tag/1.5.0

PyPi 1.5.0
https://pypi.org/project/deeptrack/1.5.0/

DeepTrack2 1.5.0 is a minor release

1/2

Gorka Muñoz Gil presents the anDi challenge @AndiChallenge and discusses how to build community challenges.

Link to the zoom webminar: https://www.conferences.uni-hamburg.de/event/256/page/161-online-webinar
@cui_unihh

Anomolous Diffusion Challenge - @AndiChallenge presented by the co-founders (@VolpeResearch and @carlomanzo78, who was terribly missed at @ETAIconference ) together with 2 of the winners @Giorgio_Volpe and @BosseStefansson!

https://www.elpuntavui.cat/societat/article/15-ciencia/2147675-es-millor-saber-una-mica-de-tot-que-tot-sobre-alguna-cosa.html?fbclid=IwAR3RHAuiap08PTKiUXA9_8VBcEWNAFlVt_gfV9_mmQ4fmztleIYm8lp_2KM

Congrats Maciej! https://www.elnacional.cat/ca/societat/fisic-maciej-lewenstein-premi-nacional-recerca-catalunya-2021_747417_102.html @ICFOnians

"Is there new physics in living matter?" 🤔
Join the 2nd #bioforphys conference to find it out! ➡️http://www.biologyforphysics.org @EuroPhysSoc

Interested in the results of the #AnDiChallenge and planning to take part in the next competition? Then check out the lecture by @VolpeResearch at #ICTS Bangalore!
🔗https://www.youtube.com/watch?v=VgNjoo1jLAM

We are now looking for PhDs and Postdocs to work on AI, optical tweezers, active matter, neurosciences, etc...

Please, retweet and apply!

PhD: https://web103.reachmee.com/ext/I005/1035/job?site=7&lang=UK&validator=9b89bead79bb7258ad55c8d75228e5b7&job_id=24377

Postdoctor: https://web103.reachmee.com/ext/I005/1035/job?site=7&lang=UK&validator=9b89bead79bb7258ad55c8d75228e5b7&job_id=24207

Ja queda poc pe l'#andiworkshop organitzat per l'@AndiChallenge!

📢Workshop: The anomalous diffusion challenge
📅1-3 de desembre
📍 ICFO, Castelldefels
🔗http://bit.ly/317Xfps

@OpticaWorldwide @ICFOnians @uvic_ucc @ERC_Research

Efficient recurrent neural network methods for anomalously diffusing single particle short and noisy trajectories: a new @AndiChallenge paper from Òscar Garibo-i-Orts, Alba Baeza-Bosca, Miguel A. Garcia-March and J. Alberto Conejero @albertconejero http://ow.ly/bXj850GWfgA

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