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trias

R package with functionality for TrIAS and LIFE RIPARIAS

https://github.com/trias-project/trias

Science Score: 44.0%

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
  • ○
    Academic publication links
  • ○
    Committers with academic emails
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (16.3%) to scientific vocabulary

Keywords

invasive-species oscibio r r-package rstats

Keywords from Contributors

lifewatch
Last synced: 7 months ago · JSON representation ·

Repository

R package with functionality for TrIAS and LIFE RIPARIAS

Basic Info
Statistics
  • Stars: 4
  • Watchers: 4
  • Forks: 1
  • Open Issues: 13
  • Releases: 13
Topics
invasive-species oscibio r r-package rstats
Created over 8 years ago · Last pushed 7 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%"
)
```

# trias 


[![CRAN status](https://www.r-pkg.org/badges/version/trias)](https://CRAN.R-project.org/package=trias)
[![R-CMD-check](https://github.com/trias-project/trias/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/trias-project/trias/actions/workflows/R-CMD-check.yaml)
[![codecov](https://codecov.io/gh/trias-project/trias/branch/main/graph/badge.svg)](https://app.codecov.io/gh/trias-project/trias/)
[![repo status](https://www.repostatus.org/badges/latest/active.svg)](https://www.repostatus.org/#active)


Trias is an R package providing functionality for the [Tracking Invasive Alien Species (TrIAS)](https://trias-project.be) and [LIFE RIPARIAS](https://www.riparias.be) projects.

To get started, see:

- [Function reference](https://trias-project.github.io/trias/reference/index.html): overview of all functions.

## Installation

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

``` r
# install.packages("devtools")
devtools::install_github("trias-project/trias")
```

## Meta

- We welcome [contributions](.github/CONTRIBUTING.md) including bug reports.
- License: MIT
- Get citation information for trias in R doing `citation("trias")`.
- 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: Tracking Invasive Alien Species (TrIAS)
  • Login: trias-project
  • Kind: organization
  • Location: Belgium

Building an open data-driven framework to support policy on invasive species

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 "trias" in publications use:'
type: software
license: MIT
title: 'trias: Process Data for the Project Tracking Invasive Alien Species (TrIAS)'
version: 3.0.3
abstract: This package provides functionality to facilitate the data processing for
  the project Tracking Invasive Alien Species (TrIAS <http://trias-project.be>).
authors:
- family-names: Oldoni
  given-names: Damiano
  email: damiano.oldoni@inbo.be
  orcid: https://orcid.org/0000-0003-3445-7562
- family-names: Delva
  given-names: Soria
  email: soria.delva@inbo.be
  orcid: https://orcid.org/0000-0002-7164-6031
- family-names: Devisscher
  given-names: Sander
  email: sander.devisscher@inbo.be
  orcid: https://orcid.org/0000-0003-2015-5731
- family-names: Varewyck
  given-names: Machteld
  email: machteld.varewyck@openanalytics.eu
  orcid: https://orcid.org/0009-0003-0496-0447
repository-code: https://github.com/trias-project/trias
url: https://trias-project.github.io/trias
contact:
- family-names: Oldoni
  given-names: Damiano
  email: damiano.oldoni@inbo.be
  orcid: https://orcid.org/0000-0003-3445-7562
keywords:
- invasive-species
- 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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    name: R Foundation for Statistical Computing
    address: Vienna, Austria
  year: '2025'
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  title: assertable
  abstract: 'assertable: Verbose Assertions for Tabular Data (Data.frames and Data.tables)'
  notes: Imports
  repository: https://CRAN.R-project.org/package=assertable
  authors:
  - family-names: Nguyen
    given-names: Grant
    email: grant.nguyen@gmail.com
  year: '2025'
  doi: 10.32614/CRAN.package.assertable
- type: software
  title: assertthat
  abstract: 'assertthat: Easy Pre and Post Assertions'
  notes: Imports
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  authors:
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    given-names: Hadley
    email: hadley@rstudio.com
  year: '2025'
  doi: 10.32614/CRAN.package.assertthat
- type: software
  title: dplyr
  abstract: 'dplyr: A Grammar of Data Manipulation'
  notes: Imports
  url: https://dplyr.tidyverse.org
  repository: https://CRAN.R-project.org/package=dplyr
  authors:
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    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
  version: '>= 1.0'
- type: software
  title: egg
  abstract: 'egg: Extensions for ''ggplot2'': Custom Geom, Custom Themes, Plot Alignment,
    Labelled Panels, Symmetric Scales, and Fixed Panel Size'
  notes: Imports
  repository: https://CRAN.R-project.org/package=egg
  authors:
  - family-names: Auguie
    given-names: Baptiste
    email: baptiste.auguie@gmail.com
  year: '2025'
  doi: 10.32614/CRAN.package.egg
- type: software
  title: forcats
  abstract: 'forcats: Tools for Working with Categorical Variables (Factors)'
  notes: Imports
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  repository: https://CRAN.R-project.org/package=forcats
  authors:
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    given-names: Hadley
    email: hadley@rstudio.com
  year: '2025'
  doi: 10.32614/CRAN.package.forcats
- type: software
  title: ggplot2
  abstract: 'ggplot2: Create Elegant Data Visualisations Using the Grammar of Graphics'
  notes: Imports
  url: https://ggplot2.tidyverse.org
  repository: https://CRAN.R-project.org/package=ggplot2
  authors:
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
    orcid: https://orcid.org/0000-0003-4757-117X
  - family-names: Chang
    given-names: Winston
    orcid: https://orcid.org/0000-0002-1576-2126
  - family-names: Henry
    given-names: Lionel
  - family-names: Pedersen
    given-names: Thomas Lin
    email: thomas.pedersen@posit.co
    orcid: https://orcid.org/0000-0002-5147-4711
  - family-names: Takahashi
    given-names: Kohske
  - family-names: Wilke
    given-names: Claus
    orcid: https://orcid.org/0000-0002-7470-9261
  - family-names: Woo
    given-names: Kara
    orcid: https://orcid.org/0000-0002-5125-4188
  - family-names: Yutani
    given-names: Hiroaki
    orcid: https://orcid.org/0000-0002-3385-7233
  - family-names: Dunnington
    given-names: Dewey
    orcid: https://orcid.org/0000-0002-9415-4582
  - family-names: Brand
    given-names: Teun
    name-particle: van den
    orcid: https://orcid.org/0000-0002-9335-7468
  year: '2025'
  doi: 10.32614/CRAN.package.ggplot2
- type: software
  title: gratia
  abstract: 'gratia: Graceful ''ggplot''-Based Graphics and Other Functions for GAMs
    Fitted Using ''mgcv'''
  notes: Imports
  url: https://gavinsimpson.github.io/gratia/
  repository: https://CRAN.R-project.org/package=gratia
  authors:
  - family-names: Simpson
    given-names: Gavin L.
    email: ucfagls@gmail.com
    orcid: https://orcid.org/0000-0002-9084-8413
  year: '2025'
  doi: 10.32614/CRAN.package.gratia
  version: '>= 0.9.0'
- type: software
  title: leaflet
  abstract: 'leaflet: Create Interactive Web Maps with the JavaScript ''Leaflet''
    Library'
  notes: Imports
  url: https://rstudio.github.io/leaflet/
  repository: https://CRAN.R-project.org/package=leaflet
  authors:
  - family-names: Cheng
    given-names: Joe
    email: joe@posit.co
  - family-names: Schloerke
    given-names: Barret
    email: barret@posit.co
    orcid: https://orcid.org/0000-0001-9986-114X
  - family-names: Karambelkar
    given-names: Bhaskar
  - family-names: Xie
    given-names: Yihui
  year: '2025'
  doi: 10.32614/CRAN.package.leaflet
- type: software
  title: lifecycle
  abstract: 'lifecycle: Manage the Life Cycle of your Package Functions'
  notes: Imports
  url: https://lifecycle.r-lib.org/
  repository: https://CRAN.R-project.org/package=lifecycle
  authors:
  - family-names: Henry
    given-names: Lionel
    email: lionel@posit.co
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
    orcid: https://orcid.org/0000-0003-4757-117X
  year: '2025'
  doi: 10.32614/CRAN.package.lifecycle
- type: software
  title: mgcv
  abstract: 'mgcv: Mixed GAM Computation Vehicle with Automatic Smoothness Estimation'
  notes: Imports
  repository: https://CRAN.R-project.org/package=mgcv
  authors:
  - family-names: Wood
    given-names: Simon
    email: simon.wood@r-project.org
  year: '2025'
  doi: 10.32614/CRAN.package.mgcv
- type: software
  title: plotly
  abstract: 'plotly: Create Interactive Web Graphics via ''plotly.js'''
  notes: Imports
  url: https://plotly-r.com
  repository: https://CRAN.R-project.org/package=plotly
  authors:
  - family-names: Sievert
    given-names: Carson
    email: cpsievert1@gmail.com
    orcid: https://orcid.org/0000-0002-4958-2844
  - family-names: Parmer
    given-names: Chris
    email: chris@plot.ly
  - family-names: Hocking
    given-names: Toby
    email: tdhock5@gmail.com
  - family-names: Chamberlain
    given-names: Scott
    email: myrmecocystus@gmail.com
  - family-names: Ram
    given-names: Karthik
    email: karthik.ram@gmail.com
  - family-names: Corvellec
    given-names: Marianne
    email: marianne.corvellec@igdore.org
    orcid: https://orcid.org/0000-0002-1994-3581
  - family-names: Despouy
    given-names: Pedro
    email: pedro@plot.ly
  year: '2025'
  doi: 10.32614/CRAN.package.plotly
- type: software
  title: purrr
  abstract: 'purrr: Functional Programming Tools'
  notes: Imports
  url: https://purrr.tidyverse.org/
  repository: https://CRAN.R-project.org/package=purrr
  authors:
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
    orcid: https://orcid.org/0000-0003-4757-117X
  - family-names: Henry
    given-names: Lionel
    email: lionel@posit.co
  year: '2025'
  doi: 10.32614/CRAN.package.purrr
- type: software
  title: readr
  abstract: 'readr: Read Rectangular Text Data'
  notes: Imports
  url: https://readr.tidyverse.org
  repository: https://CRAN.R-project.org/package=readr
  authors:
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
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    given-names: Jim
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    given-names: Jennifer
    email: jenny@posit.co
    orcid: https://orcid.org/0000-0002-6983-2759
  year: '2025'
  doi: 10.32614/CRAN.package.readr
- type: software
  title: reshape2
  abstract: 'reshape2: Flexibly Reshape Data: A Reboot of the Reshape Package'
  notes: Imports
  url: https://github.com/hadley/reshape
  repository: https://CRAN.R-project.org/package=reshape2
  authors:
  - family-names: Wickham
    given-names: Hadley
    email: h.wickham@gmail.com
  year: '2025'
  doi: 10.32614/CRAN.package.reshape2
- type: software
  title: rgbif
  abstract: 'rgbif: Interface to the Global Biodiversity Information Facility API'
  notes: Imports
  url: https://docs.ropensci.org/rgbif/
  repository: https://CRAN.R-project.org/package=rgbif
  authors:
  - family-names: Chamberlain
    given-names: Scott
    orcid: https://orcid.org/0000-0003-1444-9135
  - family-names: Oldoni
    given-names: Damiano
    orcid: https://orcid.org/0000-0003-3445-7562
  - family-names: Waller
    given-names: John
    email: jwaller@gbif.org
    orcid: https://orcid.org/0000-0002-7302-5976
  year: '2025'
  doi: 10.32614/CRAN.package.rgbif
  version: '>= 3.0'
- type: software
  title: rlang
  abstract: 'rlang: Functions for Base Types and Core R and ''Tidyverse'' Features'
  notes: Imports
  url: https://rlang.r-lib.org
  repository: https://CRAN.R-project.org/package=rlang
  authors:
  - family-names: Henry
    given-names: Lionel
    email: lionel@posit.co
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
  year: '2025'
  doi: 10.32614/CRAN.package.rlang
- type: software
  title: rnaturalearth
  abstract: 'rnaturalearth: World Map Data from Natural Earth'
  notes: Imports
  url: https://docs.ropensci.org/rnaturalearth/
  repository: https://CRAN.R-project.org/package=rnaturalearth
  authors:
  - family-names: Massicotte
    given-names: Philippe
    email: pmassicotte@hotmail.com
    orcid: https://orcid.org/0000-0002-5919-4116
  - family-names: South
    given-names: Andy
    email: southandy@gmail.com
  year: '2025'
  doi: 10.32614/CRAN.package.rnaturalearth
- type: software
  title: scales
  abstract: 'scales: Scale Functions for Visualization'
  notes: Imports
  url: https://scales.r-lib.org
  repository: https://CRAN.R-project.org/package=scales
  authors:
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
  - family-names: Pedersen
    given-names: Thomas Lin
    email: thomas.pedersen@posit.co
    orcid: https://orcid.org/0000-0002-5147-4711
  - family-names: Seidel
    given-names: Dana
  year: '2025'
  doi: 10.32614/CRAN.package.scales
- type: software
  title: sf
  abstract: 'sf: Simple Features for R'
  notes: Imports
  url: https://r-spatial.github.io/sf/
  repository: https://CRAN.R-project.org/package=sf
  authors:
  - family-names: Pebesma
    given-names: Edzer
    email: edzer.pebesma@uni-muenster.de
    orcid: https://orcid.org/0000-0001-8049-7069
  year: '2025'
  doi: 10.32614/CRAN.package.sf
- type: software
  title: stringr
  abstract: 'stringr: Simple, Consistent Wrappers for Common String Operations'
  notes: Imports
  url: https://stringr.tidyverse.org
  repository: https://CRAN.R-project.org/package=stringr
  authors:
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
  year: '2025'
  doi: 10.32614/CRAN.package.stringr
- type: software
  title: svDialogs
  abstract: 'svDialogs: ''SciViews'' - Standard Dialog Boxes for Windows, MacOS and
    Linuxes'
  notes: Imports
  url: https://www.sciviews.org/svDialogs/
  repository: https://CRAN.R-project.org/package=svDialogs
  authors:
  - family-names: Grosjean
    given-names: Philippe
    email: phgrosjean@sciviews.org
    orcid: https://orcid.org/0000-0002-2694-9471
  year: '2025'
  doi: 10.32614/CRAN.package.svDialogs
- type: software
  title: tibble
  abstract: 'tibble: Simple Data Frames'
  notes: Imports
  url: https://tibble.tidyverse.org/
  repository: https://CRAN.R-project.org/package=tibble
  authors:
  - family-names: Müller
    given-names: Kirill
    email: kirill@cynkra.com
    orcid: https://orcid.org/0000-0002-1416-3412
  - family-names: Wickham
    given-names: Hadley
    email: hadley@rstudio.com
  year: '2025'
  doi: 10.32614/CRAN.package.tibble
- type: software
  title: tidyr
  abstract: 'tidyr: Tidy Messy Data'
  notes: Imports
  url: https://tidyr.tidyverse.org
  repository: https://CRAN.R-project.org/package=tidyr
  authors:
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
  - family-names: Vaughan
    given-names: Davis
    email: davis@posit.co
  - family-names: Girlich
    given-names: Maximilian
  year: '2025'
  doi: 10.32614/CRAN.package.tidyr
- type: software
  title: tidyselect
  abstract: 'tidyselect: Select from a Set of Strings'
  notes: Imports
  url: https://tidyselect.r-lib.org
  repository: https://CRAN.R-project.org/package=tidyselect
  authors:
  - family-names: Henry
    given-names: Lionel
    email: lionel@posit.co
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
  year: '2025'
  doi: 10.32614/CRAN.package.tidyselect
  version: '>= 1.2.0'
- type: software
  title: utils
  abstract: 'R: A Language and Environment for Statistical Computing'
  notes: Imports
  authors:
  - name: R Core Team
  institution:
    name: R Foundation for Statistical Computing
    address: Vienna, Austria
  year: '2025'
- type: software
  title: covr
  abstract: 'covr: Test Coverage for Packages'
  notes: Suggests
  url: https://covr.r-lib.org
  repository: https://CRAN.R-project.org/package=covr
  authors:
  - family-names: Hester
    given-names: Jim
    email: james.f.hester@gmail.com
  year: '2025'
  doi: 10.32614/CRAN.package.covr
- type: software
  title: knitr
  abstract: 'knitr: A General-Purpose Package for Dynamic Report Generation in R'
  notes: Suggests
  url: https://yihui.org/knitr/
  repository: https://CRAN.R-project.org/package=knitr
  authors:
  - family-names: Xie
    given-names: Yihui
    email: xie@yihui.name
    orcid: https://orcid.org/0000-0003-0645-5666
  year: '2025'
  doi: 10.32614/CRAN.package.knitr
- type: software
  title: testthat
  abstract: 'testthat: Unit Testing for R'
  notes: Suggests
  url: https://testthat.r-lib.org
  repository: https://CRAN.R-project.org/package=testthat
  authors:
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
  year: '2025'
  doi: 10.32614/CRAN.package.testthat

CodeMeta (codemeta.json) 

{
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  "@type": "SoftwareSourceCode",
  "identifier": "trias",
  "description": "This package provides functionality to facilitate the data processing for the project Tracking Invasive Alien Species (TrIAS <http://trias-project.be>).",
  "name": "trias: Process Data for the Project Tracking Invasive Alien Species\n    (TrIAS)",
  "relatedLink": "https://trias-project.github.io/trias",
  "codeRepository": "https://github.com/trias-project/trias",
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}

GitHub Events

Total
  • Create event: 12
  • Release event: 5
  • Issues event: 31
  • Watch event: 1
  • Delete event: 7
  • Issue comment event: 25
  • Push event: 52
  • Pull request review comment event: 9
  • Pull request review event: 8
  • Pull request event: 11
Last Year
  • Create event: 12
  • Release event: 5
  • Issues event: 31
  • Watch event: 1
  • Delete event: 7
  • Issue comment event: 25
  • Push event: 52
  • Pull request review comment event: 9
  • Pull request review event: 8
  • Pull request event: 11

Committers

Last synced: about 2 years ago

All Time
  • Total Commits: 911
  • Total Committers: 6
  • Avg Commits per committer: 151.833
  • Development Distribution Score (DDS): 0.24
Past Year
  • Commits: 41
  • Committers: 2
  • Avg Commits per committer: 20.5
  • Development Distribution Score (DDS): 0.024
Top Committers
Name Email Commits
damianooldoni d****i@i****e 692
Sander Devisscher s****r@i****e 165
Peter Desmet p****k@g****m 49
GitHub Actions a****s@g****m 2
Stijn Van Hoey s****y@g****m 2
Yasmine Verzelen y****n@i****e 1
Committer Domains (Top 20 + Academic)
inbo.be: 3 github.com: 1

Issues and Pull Requests

Last synced: 7 months ago

All Time
  • Total issues: 86
  • Total pull requests: 69
  • Average time to close issues: 4 months
  • Average time to close pull requests: 15 days
  • Total issue authors: 12
  • Total pull request authors: 7
  • Average comments per issue: 2.74
  • Average comments per pull request: 1.8
  • Merged pull requests: 62
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 15
  • Pull requests: 9
  • Average time to close issues: 4 days
  • Average time to close pull requests: 3 days
  • Issue authors: 3
  • Pull request authors: 3
  • Average comments per issue: 0.73
  • Average comments per pull request: 0.67
  • Merged pull requests: 7
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • damianooldoni (46)
  • peterdesmet (11)
  • SanderDevisscher (10)
  • mvarewyck (5)
  • timadriaens (3)
  • soriadelva (3)
  • arnaudjacobs (2)
  • PietrH (2)
  • qgroom (1)
  • eadriaensen (1)
  • SaarJunius (1)
  • LienReyserhove (1)
Pull Request Authors
  • damianooldoni (50)
  • PietrH (5)
  • peterdesmet (4)
  • SanderDevisscher (4)
  • mvarewyck (3)
  • soriadelva (2)
  • Yasmine-Verzelen (1)
Top Labels
Issue Labels
enhancement (23) bug (8) documentation (5) Unit-tests (2) publishing (1)
Pull Request Labels
enhancement (1) bug (1)

Dependencies

DESCRIPTION cran
  • R >= 3.6 depends
  • assertable * imports
  • assertthat * imports
  • dplyr >= 1.0 imports
  • egg * imports
  • forcats * imports
  • ggplot2 * imports
  • gratia * imports
  • lazyeval * imports
  • leaflet * imports
  • magrittr * imports
  • methods * imports
  • mgcv * imports
  • plotly * imports
  • purrr * imports
  • raster * imports
  • readr * imports
  • reshape2 * imports
  • rgbif >= 3.0 imports
  • rlang * imports
  • rworldmap * imports
  • scales * imports
  • sf * imports
  • sp * imports
  • stringr * imports
  • svDialogs * imports
  • tibble * imports
  • tidyr * imports
  • tidyselect * imports
  • covr * suggests
  • knitr * suggests
  • testthat * suggests