partimode
Modeling Particle Movement and Destruction in the sediment surface mixed layer.
Science Score: 67.0%
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Repository
Modeling Particle Movement and Destruction in the sediment surface mixed layer.
Basic Info
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- Stars: 0
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Metadata Files
README.md
PartiMoDe
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Modeling Particle Movement and Destruction in the sediment surface mixed layer.
Purpose
Before particles such as fossil remains are fixed in the fossil record, they are mixed, moved, and destroyed in the surface mixed layer of the sediment. As a result, particles of the same age can be found at different depths (stratigraphic disorder), and at the same depth, particles of various ages can be found (time-averaging). The PartiMoDe model simulates the distribution of particle ages and depths as a function of mixing, sedimentation, destruction (taphonomy), and varying import/export fluxes.
Software requirements
Matlab 2006a or later.
The code was written in Matlab 2022, the implementation calls the Matlab internal function pdepe and will thus not run in Octave.
Authors
Niklas Hohmann
Utrecht University
email: n.h.hohmann [at] uu.nl
Web page: www.uu.nl/staff/NHohmann
ORCID: 0000-0003-1559-1838
Citation
To cite this repository, please use
- Hohmann, N. (2024). PartiMoDe: Modeling particle movement and destruction in the sediment surface mixed layer (v1.0.0). Zenodo. https://doi.org/10.5281/zenodo.13169644
or see the CITATION.cff file at the root of the repoitory, or use the "cite this repository" button on GitHub.
Copyright
Copyright 2023-2024 Netherlands eScience Center and Utrecht University
License
Apache 2.0 License, see LICENSE file for license text.
Repository structure
- code : directory with main model code
- docs : documentation and formalization
- examples : directory with examples and use cases
- LICENSE : Apache 2.0 License text
- README : Readme file
Funding information
Funded by the European Union (ERC, MindTheGap, StG project no 101041077). Views and opinions expressed are however those of the author(s) only and do not necessarily reflect those of the European Union or the European Research Council. Neither the European Union nor the granting authority can be held responsible for them.
Owner
- Name: MindTheGap-ERC
- Login: MindTheGap-ERC
- Kind: organization
- Repositories: 1
- Profile: https://github.com/MindTheGap-ERC
Citation (CITATION.cff)
# This CITATION.cff file was generated with cffinit.
# Visit https://bit.ly/cffinit to generate yours today!
cff-version: 1.2.0
title: PartiMoDE
message: >-
If you use this software, please cite it using the
metadata from this file.
type: software
authors:
- given-names: Niklas
family-names: Hohmann
email: N.H.Hohmann@uu.nl
affiliation: Utrecht University
orcid: 'https://orcid.org/0000-0003-1559-1838'
identifiers:
- type: doi
value: 10.5281/zenodo.13169644
description: v1.0.0 release
repository-code: 'https://github.com/MindTheGap-ERC/PartiMoDe'
abstract: >-
Before particles such as fossil remains are fixed in the
fossil record, they are mixed, moved, and destroyed in the
surface mixed layer of the sediment. As a result,
particles of the same age can be found at different depths
(stratigraphic disorder), and at the same depth, particles
of various ages can be found (time-averaging). The
PartiMoDe model simulates the distribution of particle
ages and depths as a function of mixing, sedimentation,
destruction (taphonomy), and varying import/export fluxes.
keywords:
- Sedimentology
- Surface mixed layer
- Diffusion-reaction-advection
- time averaging
- stratigraphic disorder
license: Apache-2.0
commit: 065d37c7909c73ed2fd06a66acc39e5b991c0e81
version: v1.0.0
date-released: '2024-08-02'