JOSS: https://github.com/palaeoware/trevosim/

Score: 4.143134726391533

Last synced: about 4 hours ago
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Repository metadata:

TREvoSim - The [Tr]ee [Evo]lutionary [Sim]ulator program

• Host: GitHub
• URL: https://github.com/palaeoware/trevosim/
• Owner: palaeoware
• License: gpl-3.0
• Created: 2018-04-27T18:03:14.000Z (over 8 years ago)
• Default Branch: master
• Last Pushed: 2026-07-03T14:33:45.000Z (about 2 months ago)
• Last Synced: 2026-07-30T15:07:59.860Z (23 days ago)
• Language: C++
• Size: 31.2 MB
• Stars: 7
• Watchers: 3
• Forks: 3
• Open Issues: 14
• Metadata Files:
  • Readme: README.md
  • License: LICENSE.md
  • Citation: citation.cff
  • Codemeta: codemeta.json

CodeMeta metadata:

• @context: https://w3id.org/codemeta/3.0
• Type: SoftwareSourceCode
• Application category: Evolutionary simulation
• Author:
  • • Id: https://orcid.org/0000-0002-2803-9471
    • Type: Person
    • Affiliation:
      • Type: Organization
      • Name: Department of Earth and Environmental Sciences, University of Manchester, Manchester, M13 9PL, United Kingdom; Natural History Museum, London, SW7 5BD, United Kingdom
    • Email: russell.garwood@gmail.com
    • Family name: Garwood
    • Given name: Russell J.
  • • Type: Role
    • Schema:author: https://orcid.org/0000-0002-2803-9471
    • Role name: Developer
    • Start date: 2017-01-01
  • • Id: https://orcid.org/0000-0001-6590-405X
    • Type: Person
    • Affiliation:
      • Type: Organization
      • Name: Department of Earth Science and Engineering, Imperial College, London, SW7 2AZ, United Kingdom; Natural History Museum, London, SW7 5BD, United Kingdom
    • Family name: Spencer
    • Given name: Alan R.T.
  • • Type: Role
    • Schema:author: https://orcid.org/0000-0001-6590-405X
    • Role name: Developer
    • Start date: 2019-07-01
• Code repository: git+https://github.com/palaeoware/trevosim
• Date modified: 2024-08-22
• Date published: 2021-01-21
• Description: TREvoSim is an individual-based evolutionary simulation. It creates evolutionary trees and associated character data using a model that with a fitness algorithm and replication that incorporates mutation.
• Download url: https://github.com/palaeoware/trevosim/releases/tag/v3.0.0
• Identifier: 10.5281/zenodo.13358420
• Keywords:
  • Phylogenetics
  • evolution
  • modelling
• License: https://spdx.org/licenses/GPL-3.0
• Name: TREvoSim
• Operating system:
  • Windows
  • MacOS
  • Linux
• Programming language: C++
• Release notes: The changes in v3.0.0 are described and discussed fully in the associated paper. In brief, these include: -- New character options -- New default simulation parameters -- Ecosystem engineering functionality -- An expanding playing field mode -- New logging capabilities -- The option to match fitness peaks across environments -- A no selection mode -- Mixing of organisms between playing fields -- Perturbations (periods of accelerated environmental change) -- The ability to run the simulation for a user-defined number of iterations, as opposed to for set number of species -- Abstraction of the fitness algorithm from the genome via many-to-one mapping (stochastic layer) -- A test suite integrated into the software build
• Review:
  • Type: Review
  • Review aspect: TREvoSim v3: An individual based simulation for generating trees and character data
  • Review body: Paper accompanying release of v3.0.0
• Version: 3.0.0
• Development status: active
• Funding: BBSRC - BB/N015827/1, NERC - NE/T000813/1, Leverhulme Trust - RPG-2023-234, the Alexander von Humboldt Foundation
• Issue tracker: https://github.com/palaeoware/trevosim/issues
• Reference publication: https://doi.org/10.21105/joss.06722

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Owner metadata:

• Name: palaeoware
• Login: palaeoware
• Email: palaeoware@gmail.com
• Kind: organization
• Description: Palaeontology Software for People Stuck in the Past
• Website:
• Location:
• Twitter:
• Company:
• Icon url: https://avatars.githubusercontent.com/u/38782482?v=4
• Repositories: 1
• Last Synced at: 2023-03-05T12:28:00.975Z
• Profile URL: https://github.com/palaeoware

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GitHub Events

Total

• Create event: 7
• Delete event: 5
• Issue comment event: 17
• Issues event: 5
• Pull request event: 7
• Push event: 86
• Watch event: 1
• Total: 128

Last Year

• Push event: 28
• Total: 28

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Committers metadata

Last synced: 2 days ago

Name	Email	Commits
RussellGarwood	r****d@m****k	467
Alan R.T. Spencer	a****r@i****k	31
Martin R. Smith	1****9	12

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Issue and Pull Request metadata

Last synced: 1 day ago

More stats: https://issues.ecosyste.ms/repositories/lookup?url=https://github.com/palaeoware/trevosim/

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Dependencies