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movepub

R package to prepare animal tracking data from Movebank for publication in a research repository, GBIF or OBIS

https://github.com/inbo/movepub

Science Score: 77.0%

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

  • ✓
    CITATION.cff file
    Found CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ✓
    DOI references
    Found 3 DOI reference(s) in README
  • ✓
    Academic publication links
    Links to: zenodo.org
  • ✓
    Committers with academic emails
    1 of 3 committers (33.3%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (18.7%) to scientific vocabulary

Keywords

oscibio r r-package rstats
Last synced: 6 months ago · JSON representation ·

Repository

R package to prepare animal tracking data from Movebank for publication in a research repository, GBIF or OBIS

Basic Info
Statistics
  • Stars: 3
  • Watchers: 8
  • Forks: 1
  • Open Issues: 4
  • Releases: 2
Topics
oscibio r r-package rstats
Created about 4 years ago · Last pushed 6 months ago
Metadata Files
Readme Changelog Contributing License Code of conduct Citation Codemeta

README.Rmd 

---
output: github_document
---



```{r, include = FALSE}
knitr::opts_chunk$set(
  collapse = TRUE,
  comment = "#>",
  fig.path = "man/figures/README-",
  out.width = "100%"
)
```

# movepub


![CRAN status](https://www.r-pkg.org/badges/version/movepub)
[![R-CMD-check](https://github.com/inbo/movepub/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/inbo/movepub/actions/workflows/R-CMD-check.yaml)
[![codecov](https://codecov.io/gh/inbo/movepub/branch/main/graph/badge.svg)](https://app.codecov.io/gh/inbo/movepub/)
[![repo status](https://www.repostatus.org/badges/latest/active.svg)](https://www.repostatus.org/#active)
[![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.15017582.svg)](https://doi.org/10.5281/zenodo.15017582)


Movepub is an R package to prepare animal tracking data from [Movebank](https://www.movebank.org/) for publication in a research repository. With movepub you can document data with metadata following the [Data Package](https://specs.frictionlessdata.io/) standard and transform these to [Darwin Core](https://dwc.tdwg.org) and Ecological Metadata Language ([EML](https://eml.ecoinformatics.org/)) for publication to the Global Biodiversity Information Facility ([GBIF](https://www.gbif.org)) and the Ocean Biodiversity Information System ([OBIS](https://obis.org)).

To get started, see:

- [Prepare your study](https://www.movebank.org/cms/movebank-content/archiving-movebank#general_best_practice_tips): guidelines on how data owners should prepare their study in Movebank for archiving, prior to using this package.
- [Get started](https://inbo.github.io/movepub/articles/movepub.html): an introduction to the package’s main functionalities.
- [Function reference](https://inbo.github.io/movepub/reference/index.html): overview of all functions.

Note that Movebank users retain ownership of their data, and use should follow the [general Movebank terms of use](https://www.movebank.org/cms/movebank-content/general-movebank-terms-of-use) and any other license terms set by the owner.

## Installation

You can install the development version of movepub from [GitHub](https://github.com/) with:

```{r, eval = FALSE}
# install.packages("devtools")
devtools::install_github("inbo/movepub")
```

## Usage

This package supports two use cases:

- [Make a Movebank dataset "frictionless"](https://inbo.github.io/movepub/articles/movepub.html#frictionless) with `add_resource()`. This is useful when publishing a dataset on e.g. [Zenodo](https://zenodo.org).
- [Transform a Movebank dataset to Darwin Core](https://inbo.github.io/movepub/articles/movepub.html#dwc) with `write_dwc()`. This is necessary when publishing a dataset to [GBIF](https://www.gbif.org).

## Meta

- We welcome [contributions](.github/CONTRIBUTING.md) including bug reports.
- License: MIT
- Get citation information for movepub in R doing `citation("movepub")`.
- Please note that this project is released with a [Contributor Code of Conduct](.github/CODE_OF_CONDUCT.md). By participating in this project you agree to abide by its terms.

Owner

  • Name: Research Institute for Nature and Forest (INBO)
  • Login: inbo
  • Kind: organization
  • Location: Belgium

Open source, data and science initiatives of the Research Institute for Nature and Forest (INBO)

Citation (CITATION.cff) 

# --------------------------------------------
# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
# --------------------------------------------
 
cff-version: 1.2.0
message: 'To cite package "movepub" in publications use:'
type: software
license: MIT
title: 'movepub: Prepare Movebank Data for Publication'
version: 0.4.0
abstract: Prepare animal tracking data from 'Movebank' (<https://www.movebank.org/>)
  for publication in a research repository. With 'movepub' you can document data with
  metadata following the Data Package standard and transform these to Darwin Core
  and Ecological Metadata Language ('EML') for publication to the Global Biodiversity
  Information Facility ('GBIF') and the Ocean Biodiversity Information System ('OBIS').
authors:
- family-names: Desmet
  given-names: Peter
  email: peter.desmet@inbo.be
  orcid: https://orcid.org/0000-0002-8442-8025
  affiliation: Research Institute for Nature and Forest (INBO)
- family-names: Govaert
  given-names: Sanne
  email: sanne.govaert@inbo.be
  orcid: https://orcid.org/0000-0002-8939-1305
  affiliation: Research Institute for Nature and Forest (INBO)
repository-code: https://github.com/inbo/movepub
url: https://inbo.github.io/movepub/
date-released: '2025-08-27'
contact:
- family-names: Desmet
  given-names: Peter
  email: peter.desmet@inbo.be
  orcid: https://orcid.org/0000-0002-8442-8025
  affiliation: Research Institute for Nature and Forest (INBO)
keywords:
- oscibio
- r
- r-package
- rstats
references:
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  title: 'R: A Language and Environment for Statistical Computing'
  notes: Depends
  url: https://www.R-project.org/
  authors:
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  institution:
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    address: Vienna, Austria
  year: '2025'
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- type: software
  title: cli
  abstract: 'cli: Helpers for Developing Command Line Interfaces'
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  authors:
  - family-names: Csárdi
    given-names: Gábor
    email: gabor@posit.co
  year: '2025'
  doi: 10.32614/CRAN.package.cli
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  abstract: 'dplyr: A Grammar of Data Manipulation'
  notes: Imports
  url: https://dplyr.tidyverse.org
  repository: https://CRAN.R-project.org/package=dplyr
  authors:
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
    orcid: https://orcid.org/0000-0003-4757-117X
  - family-names: François
    given-names: Romain
    orcid: https://orcid.org/0000-0002-2444-4226
  - family-names: Henry
    given-names: Lionel
  - family-names: Müller
    given-names: Kirill
    orcid: https://orcid.org/0000-0002-1416-3412
  - family-names: Vaughan
    given-names: Davis
    email: davis@posit.co
    orcid: https://orcid.org/0000-0003-4777-038X
  year: '2025'
  doi: 10.32614/CRAN.package.dplyr
- type: software
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  abstract: 'EML: Read and Write Ecological Metadata Language Files'
  notes: Imports
  url: https://docs.ropensci.org/EML/
  repository: https://CRAN.R-project.org/package=EML
  authors:
  - family-names: Boettiger
    given-names: Carl
    email: cboettig@gmail.com
    orcid: https://orcid.org/0000-0002-1642-628X
  - family-names: Jones
    given-names: Matthew B.
    orcid: https://orcid.org/0000-0003-0077-4738
  year: '2025'
  doi: 10.32614/CRAN.package.EML
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  abstract: 'frictionless: Read and Write Frictionless Data Packages'
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  authors:
  - family-names: Desmet
    given-names: Peter
    email: peter.desmet@inbo.be
    orcid: https://orcid.org/0000-0002-8442-8025
    affiliation: Research Institute for Nature and Forest (INBO)
  - family-names: Oldoni
    given-names: Damiano
    email: damiano.oldoni@inbo.be
    orcid: https://orcid.org/0000-0003-3445-7562
    affiliation: Research Institute for Nature and Forest (INBO)
  - family-names: Huybrechts
    given-names: Pieter
    email: pieter.huybrechts@inbo.be
    orcid: https://orcid.org/0000-0002-6658-6062
    affiliation: Research Institute for Nature and Forest (INBO)
  - family-names: Govaert
    given-names: Sanne
    email: sanne.govaert@inbo.be
    orcid: https://orcid.org/0000-0002-8939-1305
    affiliation: Research Institute for Nature and Forest (INBO)
  year: '2025'
  doi: 10.32614/CRAN.package.frictionless
- type: software
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  abstract: 'jsonlite: A Simple and Robust JSON Parser and Generator for R'
  notes: Imports
  url: https://jeroen.r-universe.dev/jsonlite
  repository: https://CRAN.R-project.org/package=jsonlite
  authors:
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    given-names: Jeroen
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  year: '2025'
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  repository: https://CRAN.R-project.org/package=lifecycle
  authors:
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    given-names: Lionel
    email: lionel@posit.co
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  year: '2025'
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  notes: Imports
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  authors:
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  repository: https://CRAN.R-project.org/package=rlang
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  year: '2025'
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  repository: https://CRAN.R-project.org/package=tidyr
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    given-names: Hadley
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  url: https://docs.ropensci.org/worrms/
  repository: https://CRAN.R-project.org/package=worrms
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  year: '2025'
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  notes: Imports
  url: https://xml2.r-lib.org
  repository: https://CRAN.R-project.org/package=xml2
  authors:
  - family-names: Wickham
    given-names: Hadley
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  notes: Suggests
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  repository: https://CRAN.R-project.org/package=knitr
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  year: '2025'
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  authors:
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        "url": "https://cran.r-project.org"
      },
      "sameAs": "https://CRAN.R-project.org/package=jsonlite"
    },
    "7": {
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  "fileSize": "4231.147KB",
  "releaseNotes": "https://github.com/inbo/movepub/blob/main/NEWS.md",
  "readme": "https://github.com/inbo/movepub/blob/main/README.md",
  "contIntegration": [
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    "https://app.codecov.io/gh/inbo/movepub/"
  ],
  "developmentStatus": "https://www.repostatus.org/#active",
  "keywords": [
    "oscibio",
    "r",
    "r-package",
    "rstats"
  ]
}

GitHub Events

Total
  • Create event: 12
  • Release event: 2
  • Issues event: 9
  • Delete event: 9
  • Issue comment event: 19
  • Push event: 50
  • Pull request review comment event: 8
  • Pull request review event: 16
  • Pull request event: 17
Last Year
  • Create event: 12
  • Release event: 2
  • Issues event: 9
  • Delete event: 9
  • Issue comment event: 19
  • Push event: 50
  • Pull request review comment event: 8
  • Pull request review event: 16
  • Pull request event: 17

Committers

Last synced: about 2 years ago

All Time
  • Total Commits: 262
  • Total Committers: 3
  • Avg Commits per committer: 87.333
  • Development Distribution Score (DDS): 0.248
Past Year
  • Commits: 97
  • Committers: 2
  • Avg Commits per committer: 48.5
  • Development Distribution Score (DDS): 0.351
Top Committers
Name Email Commits
peterdesmet p****t@i****e 197
Pieter Huybrechts 4****H 63
sarahcd s****n@o****e 2
Committer Domains (Top 20 + Academic)
orn.mpg.de: 1 inbo.be: 1

Issues and Pull Requests

Last synced: over 1 year ago

All Time
  • Total issues: 71
  • Total pull requests: 36
  • Average time to close issues: about 2 months
  • Average time to close pull requests: 21 days
  • Total issue authors: 4
  • Total pull request authors: 4
  • Average comments per issue: 3.04
  • Average comments per pull request: 1.42
  • Merged pull requests: 32
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 31
  • Pull requests: 24
  • Average time to close issues: 2 months
  • Average time to close pull requests: 13 days
  • Issue authors: 2
  • Pull request authors: 2
  • Average comments per issue: 1.32
  • Average comments per pull request: 1.33
  • Merged pull requests: 22
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • peterdesmet (58)
  • sannegovaert (4)
  • sangovae (2)
  • SWotherspoon (1)
  • PietrH (1)
Pull Request Authors
  • peterdesmet (22)
  • sannegovaert (19)
  • sangovae (4)
  • sarahcd (2)
  • PietrH (2)
Top Labels
Issue Labels
help wanted (11) enhancement (10) Movebank Attribute Dictionary (5) bug (4) eml (2) wontfix (1)
Pull Request Labels
blocked (2) eml (1) Darwin Core (1)

Dependencies

DESCRIPTION cran
  • DBI * imports
  • EML * imports
  • RSQLite * imports
  • assertthat * imports
  • dplyr * imports
  • frictionless * imports
  • glue * imports
  • jsonlite * imports
  • purrr * imports
  • readr * imports
  • uuid * imports
  • knitr * suggests
  • rmarkdown * suggests
  • testthat >= 3.0.0 suggests
.github/workflows/R-CMD-check.yaml actions
  • actions/checkout v2 composite
  • r-lib/actions/check-r-package v2 composite
  • r-lib/actions/setup-pandoc v2 composite
  • r-lib/actions/setup-r v2 composite
  • r-lib/actions/setup-r-dependencies v2 composite
.github/workflows/pkgdown.yaml actions
  • actions/cache v2 composite
  • actions/checkout v2 composite
  • r-lib/actions/setup-pandoc v1 composite
  • r-lib/actions/setup-r v1 composite