Modeling Marine Ecosystems At Multiple Scales Using Julia
2021-07-25, 14:00–17:00 (UTC), Red

Life in the oceans is strongly connected to our climate. In this workshop, you will learn to use packages from the JuliaOcean and JuliaClimate organizations that provide a foundation for studying marine ecosystems across a wide range of scales. We will first run agent-based models to explore individual microbes and processes that drive species interactions. On the other end of the model hierarchy, we will simulate planetary-scale transports that control ocean biogeography and climate change.

Packages covered in this workshop will include:

  • AIBECS.jl : global steady-state biogeochemistry and gridded transport models that run fast for long time scales (centuries or even millenia).
  • PlanktonIndividuals.jl : local to global agent based model, particluarly suited to study microbial communities, plankton physiology, and nutrient cycles.
  • IndividualDisplacements.jl : local to global particle tracking, for simulating dispersion, connectivity, transports in the ocean or atmosphere, etc.
  • MITgcmTools.jl : interface to full-featured, fortran-based, general circulation model and its output (transports, chemistry, ecology, ocean, seaice, atmosphere, and more).

The workshop's first two hours will be organized around tutorials and self-contained Pluto notebooks for the different packages.

The third hour will provide the opportunity for attendees to further explore the models in breakout rooms and via exercises.

Workshop schedule in more detail:

  • Introduction of the topics covered, presenters, installation, and workshop roadmap (15 minutes).

  • AIBECS.jl : concept, implementation, tutorial workthough (20 minutes + 10' for questions)

  • PlanktonIndividuals.jl : concept, implementation, tutorial workthough (20 minutes + 10' for questions)

  • IndividualDisplacements.jl : concept, implementation, tutorial workthough (10 minutes + 10' for questions)

  • MITgcmTools.jl : concept, implementation, tutorial workthough (10 minutes + 10' for questions)

  • 5-minute break

  • breakout rooms for deeper dive in tutorials, exercises, or trying out your own idea with guidance from the presenters (1 hour)

Workshop materials will be made available ahead of time @

I work as a reseach scientist at the Massachusetts Institute of Technology (MIT) where I investigate oceanography and climate. As part of the Department of Earth, Atmospheric and Planetary Sciences, my work focuses on ocean modeling and the analysis of global ocean data sets such as Argo profile collections, satellite records of sea level, or ocean color retrievals. I co-develop computer programs in various languages and carry out ocean state estimation using the MIT general circulation model in order to interpolate and interpret ocean observations. My scientific interests include: ocean circulation and climate variability; tracer transport and turbulent transformation processes; interaction of ecological, geochemical, and physical processes; global cycles of heat, water, and carbon; observational statistics; forward and inverse modeling.

This speaker also appears in:

Postdoc at the University of Southern California