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giantkelpdynamics

Dynamical model for the motion of giant kelp (Macrocystis pyrifera). Accompanies "A model of tidal flow and tracer release in a giant kelp forest"(Strong-Wright and Taylor, In review)

https://github.com/jagoosw/giantkelpdynamics

Science Score: 67.0%

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    CITATION.cff file
    Found CITATION.cff file
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    codemeta.json file
    Found codemeta.json file
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    .zenodo.json file
    Found .zenodo.json file
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    DOI references
    Found 19 DOI reference(s) in README
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    Links to: zenodo.org
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    Low similarity (10.4%) to scientific vocabulary
Last synced: 6 months ago · JSON representation ·

Repository

Dynamical model for the motion of giant kelp (Macrocystis pyrifera). Accompanies "A model of tidal flow and tracer release in a giant kelp forest"(Strong-Wright and Taylor, In review)

Basic Info
  • Host: GitHub
  • Owner: jagoosw
  • License: mit
  • Language: Julia
  • Default Branch: main
  • Homepage:
  • Size: 20.2 MB
Statistics
  • Stars: 1
  • Watchers: 2
  • Forks: 1
  • Open Issues: 2
  • Releases: 4
Created over 3 years ago · Last pushed 6 months ago
Metadata Files
Readme License Citation

README.md

GiantKelpDynamics

DOI Documentation Documentation

GiantKelpDynamics.jl is a Julia package providing a dynamical model for the motion (and in the future the growth and biogeochemical interactions) of giant kelp (Macrocystis pyrifera).

The kinematic model is based on the work of Utter and Denny, 1996 and Rosman et al., 2013, and used in Strong-Wright and Taylor, 2024.

https://github.com/jagoosw/GiantKelpDynamics/assets/26657828/2383251b-656a-4f1d-aaee-d16605592045

We have implemented it in the particle in the framework of OceanBioME.jl and coupled with the fluid dynamics of Oceananigans.jl.

Please note that the release v0.0.1 accompanies the publication A model of tidal flow and tracer release in a giant kelp forest (Strong-Wright and Taylor, 2024) and contains the version of the code used for the experiments in that work. We do not recommend using that version and suggest that the current version is used as it has been substantially rewritten to improve the maintainability of the code (while leaving the mathematical model of the motion unchanged) and therefore a significant amount of breaking changes have been introduced since this version.

Model details

The kinematic model discretises each kelp individual into segments to which several forces: drag, buoyancy, tension, and inertial, are applied. This is shown in this diagram:

Diagram of the discretization and forces on each segment

Further details can be found in Strong-Wright and Taylor, 2024.

Kelp forests

The model is designed to be used to simulate kelp forests and reproduce their motion (Strong-Wright and Taylor, 2024). This figure shows an example of the flow around a forest:

Tracer released from a kelp forest within a simple tidal flow

Documentation

Simple examples and documentation can be found here.

Citation

If you use this model in your work please cite Strong-Wright and Taylor, 2024 and link to this repository. You may also cite the specific version used by citing the Zenode archive.

Owner

  • Name: Jago Strong-Wright
  • Login: jagoosw
  • Kind: user
  • Location: Cambridge, UK
  • Company: University of Cambridge

Ocean carbon, @OceanBioME

Citation (CITATION.cff) 

cff-version: 1.1.0
message: "If you use this software, please cite it as below."
authors:
- family-names: Strong-Wright
  given-names: Jago
orcid: https://orcid.org/0000-0002-7174-5283
title: "GiantKelpDynamics.jl: A dynamical model for the motion of giant kelp (Macrocystis pyrifera). "
version: v0.3.0
date-released: 2024-02-29

GitHub Events

Total
  • Push event: 14
  • Pull request event: 3
  • Create event: 1
Last Year
  • Push event: 14
  • Pull request event: 3
  • Create event: 1

Committers

Last synced: over 1 year ago

All Time
  • Total Commits: 250
  • Total Committers: 1
  • Avg Commits per committer: 250.0
  • Development Distribution Score (DDS): 0.0
Past Year
  • Commits: 110
  • Committers: 1
  • Avg Commits per committer: 110.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Jago Stong-Wright j****w@p****m 250

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 0
  • Total pull requests: 10
  • Average time to close issues: N/A
  • Average time to close pull requests: 4 days
  • Total issue authors: 0
  • Total pull request authors: 1
  • Average comments per issue: 0
  • Average comments per pull request: 0.2
  • Merged pull requests: 6
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 0
  • Pull requests: 4
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 0
  • Pull request authors: 1
  • Average comments per issue: 0
  • Average comments per pull request: 0.0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
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  • jagoosw (12)
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Dependencies

.github/workflows/docscleanup.yml actions
  • actions/checkout v2 composite
.github/workflows/documentaiton.yml actions
  • actions/checkout v3 composite
  • julia-actions/setup-julia latest composite
.github/workflows/test.yml actions
  • actions/cache v1 composite
  • actions/checkout v3 composite
  • codecov/codecov-action v2 composite
  • julia-actions/julia-buildpkg v1 composite
  • julia-actions/julia-processcoverage v1 composite
  • julia-actions/julia-runtest v1 composite
  • julia-actions/setup-julia v1 composite