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amepproject / amep

The Active Matter Evaluation Package (AMEP) - a Python library for the analysis of particle-based and continuum simulation data of soft and active matter systems
https://amepproject.de/
GNU General Public License v3.0
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FRQ: local entropy production #14

Open hechtprojects opened 7 months ago

hechtprojects commented 7 months ago

Proposed new feature or change:

AMEP should provide a method to calculate the local entropy production, which is an important observable for investigating active matter systems. I suggest to implement the method presented in Ref. [1], the source code of which can be found in Ref. [2]. It is a universal method that does not require any knowledge about the equations of motions and should applicable to both particle-based and continuum simulation data as well as experimental data.

The method should be included in the module amep.thermo and a corresponding evaluate class should also be added to the amep.evaluate module.

[1] https://journals.aps.org/prl/abstract/10.1103/PhysRevLett.129.220601

[2] https://github.com/martiniani-lab/sweetsourcod/tree/master

aritra-mukhopadhyay commented 6 months ago

We can also look into: https://www.nature.com/articles/s42005-021-00787-x if it provides any additional advantage. It also mentions that we don't need info about the system setup, just a time-series of particle trajectory is enough.