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camtrapdp

R package to read and manipulate Camera Trap Data Packages (Camtrap DP)

https://github.com/inbo/camtrapdp

Science Score: 67.0%

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Keywords

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

Repository

R package to read and manipulate Camera Trap Data Packages (Camtrap DP)

Basic Info
Statistics
  • Stars: 9
  • Watchers: 7
  • Forks: 1
  • Open Issues: 19
  • Releases: 4
Topics
camtrap-dp oscibio r r-package rstats
Created about 2 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%"
)
```

# camtrapdp


[![CRAN status](https://www.r-pkg.org/badges/version/camtrapdp)](https://CRAN.R-project.org/package=camtrapdp)
[![CRAN checks](https://badges.cranchecks.info/worst/camtrapdp.svg)](https://cran.r-project.org/web/checks/check_results_camtrapdp.html)
[![R-CMD-check](https://github.com/inbo/camtrapdp/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/inbo/camtrapdp/actions/workflows/R-CMD-check.yaml)
[![codecov](https://codecov.io/gh/inbo/camtrapdp/branch/main/graph/badge.svg)](https://app.codecov.io/gh/inbo/camtrapdp/)
[![repo status](https://www.repostatus.org/badges/latest/active.svg)](https://www.repostatus.org/#active)
[![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.11490269.svg)](https://doi.org/10.5281/zenodo.11490269)


Camtrapdp is an R package to read and manipulate Camera Trap Data Packages (Camtrap DP). [Camtrap DP](https://camtrap-dp.tdwg.org) is a data exchange format for camera trap data. With camtrapdp you can read, filter and transform data (including to [Darwin Core](https://dwc.tdwg.org)) before further analysis in e.g. [camtraptor](https://inbo.github.io/camtraptor/) or [camtrapR](https://cran.r-project.org/package=camtrapR).

To get started, see:

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

## Installation

Install the latest released version from CRAN:

```{r, eval = FALSE}
install.packages("camtrapdp")
```

Or the development version from [GitHub](https://github.com/inbo/camtrapdp):

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

## Usage

With camtrapdp you can **read** a Camtrap DP dataset into your R environment:

```{r}
library(camtrapdp, warn.conflicts = FALSE)

file <- "https://raw.githubusercontent.com/tdwg/camtrap-dp/1.0/example/datapackage.json"
x <- read_camtrapdp(file)
x
```

`read_camtrapdp()` will automatically **upgrade** an older version of Camtrap DP to the latest version. It will also make the data easier to use, by assigning taxonomic information (found in the metadata) to the observations and `eventID`s (found in the observations) to the media.

To **access** the data, use one of the [accessor functions](https://inbo.github.io/camtrapdp/reference/index.html#accessor-and-assignment-functions) like `locations()`:

```{r}
locations(x)
```

You can also **filter** data with one of the [filter functions](https://inbo.github.io/camtrapdp/reference/index.html#filter-functions), which automatically filter the related data. For example, here we filter observations on scientific name(s) and return the associated events in that subset:

```{r}
x %>%
  filter_observations(
    scientificName %in% c("Martes foina", "Mustela putorius")
  ) %>%
  events()
```

For more functionality, see the [function reference](https://inbo.github.io/camtrapdp/reference/index.html).

## GBIF pipeline

The Global Biodiversity Information Facility ([GBIF](https://www.gbif.org/)) uses camtrapdp to process Camera Trap Data Packages published with the Integrated Publishing Toolkit ([IPT](https://www.gbif.org/ipt)). Datasets are first read with `read_camtrapdp()` and then converted to Darwin Core with `write_dwc()` and EML with `write_eml()`. See the [Camtrap DP pipeline repository](https://github.com/gbif/camtrap-dp-pipeline/tree/master/docker) for details.

## Meta

- We welcome [contributions](https://inbo.github.io/camtrapdp/CONTRIBUTING.html) including bug reports.
- License: MIT
- Get [citation information](https://inbo.github.io/camtrapdp/authors.html#citation) for camtrapdp in R doing `citation("camtrapdp")`.
- Please note that this project is released with a [Contributor Code of Conduct](https://inbo.github.io/camtrapdp/CODE_OF_CONDUCT.html). 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 "camtrapdp" in publications use:'
type: software
license: MIT
title: 'camtrapdp: Read and Manipulate Camera Trap Data Packages'
version: 0.4.0
doi: 10.32614/CRAN.package.camtrapdp
abstract: Read and manipulate Camera Trap Data Packages ('Camtrap DP'). 'Camtrap DP'
  (<https://camtrap-dp.tdwg.org>) is a data exchange format for camera trap data.
  With 'camtrapdp' you can read, filter and transform data (including to Darwin Core)
  before further analysis in e.g. 'camtraptor' or 'camtrapR'.
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)
- 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: 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)
repository: https://CRAN.R-project.org/package=camtrapdp
repository-code: https://github.com/inbo/camtrapdp
url: https://inbo.github.io/camtrapdp/
date-released: '2025-06-06'
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:
- camtrap-dp
- oscibio
- r
- r-package
- rstats
references:
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  notes: Imports
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  year: '2025'
  doi: 10.32614/CRAN.package.cli
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    given-names: Hadley
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    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
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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'
  notes: Imports
  url: https://docs.ropensci.org/frictionless/
  repository: https://CRAN.R-project.org/package=frictionless
  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)
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  notes: Imports
  url: https://memoise.r-lib.org
  repository: https://CRAN.R-project.org/package=memoise
  authors:
  - family-names: Wickham
    given-names: Hadley
    email: hadley@rstudio.com
  - family-names: Hester
    given-names: Jim
  - family-names: Chang
    given-names: Winston
    email: winston@rstudio.com
  - family-names: Müller
    given-names: Kirill
    email: krlmlr+r@mailbox.org
  - family-names: Cook
    given-names: Daniel
    email: danielecook@gmail.com
  year: '2025'
  doi: 10.32614/CRAN.package.memoise
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  notes: Imports
  url: https://purrr.tidyverse.org/
  repository: https://CRAN.R-project.org/package=purrr
  authors:
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    given-names: Hadley
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  authors:
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    given-names: Hadley
    email: hadley@posit.co
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    given-names: Jim
  - family-names: Bryan
    given-names: Jennifer
    email: jenny@posit.co
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  year: '2025'
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  url: https://rlang.r-lib.org
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  authors:
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    given-names: Lionel
    email: lionel@posit.co
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    email: hadley@posit.co
  year: '2025'
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    email: hadley@posit.co
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GitHub Events

Total
  • Issues event: 53
  • Watch event: 2
  • Delete event: 19
  • Issue comment event: 89
  • Push event: 169
  • Pull request review comment event: 16
  • Pull request review event: 35
  • Pull request event: 34
  • Create event: 16
Last Year
  • Issues event: 53
  • Watch event: 2
  • Delete event: 19
  • Issue comment event: 89
  • Push event: 169
  • Pull request review comment event: 16
  • Pull request review event: 35
  • Pull request event: 34
  • Create event: 16

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 109
  • Total pull requests: 83
  • Average time to close issues: 5 months
  • Average time to close pull requests: 22 days
  • Total issue authors: 9
  • Total pull request authors: 5
  • Average comments per issue: 1.88
  • Average comments per pull request: 1.72
  • Merged pull requests: 71
  • Bot issues: 1
  • Bot pull requests: 0
Past Year
  • Issues: 42
  • Pull requests: 43
  • Average time to close issues: about 1 month
  • Average time to close pull requests: 24 days
  • Issue authors: 7
  • Pull request authors: 4
  • Average comments per issue: 1.05
  • Average comments per pull request: 1.23
  • Merged pull requests: 33
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • peterdesmet (58)
  • sannegovaert (21)
  • PietrH (12)
  • damianooldoni (11)
  • sangovae (2)
  • ddachs (2)
  • github-actions[bot] (1)
  • Rafnuss (1)
  • BBodeux (1)
  • jimcasaer (1)
Pull Request Authors
  • peterdesmet (49)
  • sannegovaert (48)
  • PietrH (18)
  • damianooldoni (8)
  • sangovae (4)
  • JosiahParry (2)
Top Labels
Issue Labels
enhancement (20) bug (8) documentation (7) function:transform (5) question (3) function:write_dwc (3) function:write_eml (3) blocked (3) function:accessor_assignment (2) function:data (1) CRAN (1) function:read (1) dwc (1) function:write_camtrapdp (1)
Pull Request Labels
enhancement (2) function:write_dwc (1) blocked (1)

Packages

  • Total packages: 1
  • Total downloads:
    • cran 262 last-month
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 3
  • Total maintainers: 1
cran.r-project.org: camtrapdp

Read and Manipulate Camera Trap Data Packages

  • Versions: 3
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 262 Last month
Rankings
Dependent packages count: 28.8%
Dependent repos count: 35.4%
Average: 49.9%
Downloads: 85.6%
Maintainers (1)
peter.desmet@inbo.be
Last synced: 7 months ago

Dependencies

.github/workflows/R-CMD-check.yaml actions
  • actions/checkout v4 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/test-coverage.yaml actions
  • actions/checkout v4 composite
  • actions/upload-artifact v4 composite
  • r-lib/actions/setup-r v2 composite
  • r-lib/actions/setup-r-dependencies v2 composite
DESCRIPTION cran
  • testthat >= 3.0.0 suggests
.github/workflows/pkgdown.yaml actions
  • JamesIves/github-pages-deploy-action v4.5.0 composite
  • actions/checkout v4 composite
  • r-lib/actions/setup-pandoc v2 composite
  • r-lib/actions/setup-r v2 composite
  • r-lib/actions/setup-r-dependencies v2 composite