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admur

https://github.com/ucl/admur

Science Score: 57.0%

This score indicates how likely this project is to be science-related based on various indicators:

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    CITATION.cff file
  • ✓
    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 1 DOI reference(s) in README
  • ○
    Academic publication links
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    Committers with academic emails
    1 of 1 committers (100.0%) from academic institutions
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    Institutional organization owner
    Organization ucl has institutional domain (www.ucl.ac.uk)
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    JOSS paper metadata
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    Scientific vocabulary similarity
    Low similarity (14.4%) to scientific vocabulary
Last synced: 7 months ago · JSON representation

Repository

Basic Info
  • Host: GitHub
  • Owner: UCL
  • Language: R
  • Default Branch: master
  • Size: 29.7 MB
Statistics
  • Stars: 11
  • Watchers: 2
  • Forks: 1
  • Open Issues: 1
  • Releases: 0
Created over 5 years ago · Last pushed over 2 years ago
Metadata Files
Readme Changelog

README.md

UCL Research Software Development UCL Research Software Development Max Planck Institute for the Science of Human History Pan African Evolution ResearchGroup

Build Status

ADMUR

Ancient Demographic Modelling Using Radiocarbon

Statistical tools to directly model underlying population dynamics using date datasets (radiocarbon and other).

Population modelling

Various model structures can be compared in a robust formal model comparison framework. Continuous Piecewise Linear (CPL) models are infinitely flexible, and can recover complex population dynamics if enough data is available. Other simpler models include: Uniform, Exponential, Gaussian, Cauchy, Sinusoidal, Logistic and Power law. Taphonomic loss included optionally as a power function.

Bayesian Parameter estimation

Posterior parameter estimates of population models, using model likelihoods and a weak uniform prior.

SPDs and simulation based testing

Package also calibrates 14C samples, generates Summed Probability Distributions (SPD), and performs SPD simulation analysis to generate a Goodness-of-fit test for the best selected model. Continuous Piecewise Linear (CPL) models that are flexible to estimate any complex population dynamics

Installation

Install from CRAN, then load r install.packages('ADMUR') library('ADMUR')

Guide

Refer to the vignette 'guide' for detailed support and examples.

r vignette('guide', package = 'ADMUR')

Contact

Please contact a.timpson@ucl.ac.uk in the first instance to make suggestions, report bugs or request help.

References

This package accompanies the following paper:

Timpson A., Barberena R., Thomas M. G., Mendez C., Manning K. 2020. "Directly modelling population dynamics in the South American Arid Diagonal using 14C dates",Philosophical Transactions B. https://royalsocietypublishing.org/doi/10.1098/rstb.2019.0723.

Citations available as follows: r citation(package='ADMUR')

ADMUR was written in collaboration with: - University College London - Department of Genetics, Evolution and Environment - Molecular and Cultural Evolution Laboratory - UCL Research Software Development - Max Planck Institute for the Science of Human History - Department of Archaeology - Pan African Evolution ResearchGroup

Special thanks to Yoan Diekmann for his influential inferential input.

Also thanks to the following who have reported bugs, requested additional functionality, offered constructive criticism, or provided other advice: - Gregor Seyer - Uwe Ligges - Prof Brian Ripley - Enrico Crema - Ricardo Fernandes

- Mark G. Thomas

Owner

  • Name: University College London
  • Login: UCL
  • Kind: organization
  • Email: rc-softdev@ucl.ac.uk

GitHub Events

Total
Last Year

Committers

Last synced: 10 months ago

All Time
  • Total Commits: 194
  • Total Committers: 1
  • Avg Commits per committer: 194.0
  • Development Distribution Score (DDS): 0.0
Past Year
  • Commits: 0
  • Committers: 0
  • Avg Commits per committer: 0.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
AdrianTimpson a****n@u****k 194
Committer Domains (Top 20 + Academic)
ucl.ac.uk: 1

Issues and Pull Requests

Last synced: 10 months ago

All Time
  • Total issues: 1
  • Total pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Total issue authors: 1
  • Total pull request authors: 0
  • Average comments per issue: 0.0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 1
  • Pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 1
  • Pull request authors: 0
  • Average comments per issue: 0.0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
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Top Authors
Issue Authors
  • isakro (1)
Pull Request Authors
Top Labels
Issue Labels
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Packages

  • Total packages: 1
  • Total downloads:
    • cran 179 last-month
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 4
  • Total maintainers: 1
cran.r-project.org: ADMUR

Ancient Demographic Modelling Using Radiocarbon

  • Versions: 4
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 179 Last month
Rankings
Forks count: 17.8%
Stargazers count: 19.8%
Average: 28.9%
Dependent packages count: 29.8%
Dependent repos count: 35.5%
Downloads: 41.6%
Maintainers (1)
a.timpson@ucl.ac.uk
Last synced: 9 months ago

Dependencies

DESCRIPTION cran
  • R >= 4.0.0 depends
  • grDevices * imports
  • graphics * imports
  • mathjaxr * imports
  • scales * imports
  • stats * imports
  • zoo * imports
  • DEoptimR * suggests
  • knitr * suggests
  • rmarkdown * suggests