rphenofish
:package: An R package to handle PhenoFish database
Science Score: 44.0%
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○Scientific vocabulary similarity
Low similarity (17.9%) to scientific vocabulary
Last synced: 6 months ago
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Repository
:package: An R package to handle PhenoFish database
Basic Info
- Host: GitHub
- Owner: PhenoFish
- License: gpl-2.0
- Language: R
- Default Branch: main
- Homepage: https://phenofish.github.io/rphenofish
- Size: 3.8 MB
Statistics
- Stars: 0
- Watchers: 1
- Forks: 1
- Open Issues: 0
- Releases: 0
Created over 2 years ago
· Last pushed almost 2 years ago
Metadata Files
Readme
Changelog
Contributing
License
Code of conduct
Citation
README.Rmd
---
output: github_document
---
```{r, include = FALSE}
knitr::opts_chunk$set(collapse = TRUE,
comment = "#>",
fig.path = "man/figures/",
out.width = "100%")
```
rphenofish 
=========================================================
[](https://github.com/PhenoFish/rphenofish/actions/workflows/R-CMD-check.yaml)
[](https://github.com/PhenoFish/rphenofish/actions/workflows/pkgdown.yaml)
[](https://codecov.io/gh/PhenoFish/rphenofish)
[](https://CRAN.R-project.org/package=rphenofish)
[](https://choosealicense.com/licenses/gpl-2.0/)
## Table of contents
• Overview
• Features
• Installation
• Get started
• Documentation
• Citation
• Contributing
• Acknowledgments
• References
## Overview
The goal of the R package `rphenofish` is to provide an interface to the PHENOFISH database. **{{ ADD A FEW LINES }}**
## Features
The main purpose of the `rphenofish` package is to download, select, filter, homogenize, and visualize PHENOFISH data. The [References](https://phenofish.github.io/rphenofish/reference/index.html) page provides a full description of the features available in the package.
## Installation
You can install the development version from [GitHub](https://github.com/) with:
```{r eval=FALSE}
## Install < remotes > package (if not already installed) ----
if (!requireNamespace("remotes", quietly = TRUE)) {
install.packages("remotes")
}
## Install dev version of < rphenofish > from GitHub ----
remotes::install_github("PhenoFish/rphenofish")
```
Then you can attach the package `rphenofish`:
```{r eval=FALSE}
library("rphenofish")
```
## Get started
For an overview of the main features of `rphenofish`, please read the [Get started](https://phenofish.github.io/rphenofish/articles/rphenofish.html) vignette.
## Documentation
`rphenofish` provides **{{ XX }}** vignettes to learn more about the package:
- the [Get started](https://phenofish.github.io/rphenofish/articles/rphenofish.html) vignette describes the core features of the package
- other vignettes will come soon
## Citation
Please cite this package as:
> Casajus N & Loiseau N (`r format(Sys.Date(), "%Y")`) rphenofish: An R client to access the PHENOFISH database. R package version 0.0.0.9000. URL: https://phenofish.github.io/rphenofish/.
## Contributing
All types of contributions are encouraged and valued. For more information, check out our [Contributor Guidelines](https://github.com/phenofish/rphenofish/blob/main/CONTRIBUTING.md).
Please note that the `rphenofish` project is released with a [Contributor Code of Conduct](https://contributor-covenant.org/version/2/1/CODE_OF_CONDUCT.html). By contributing to this project, you agree to abide by its terms.
## Acknowledgments
This package has been developed for the [FRB-CESAB](https://www.fondationbiodiversite.fr/en/about-the-foundation/le-cesab/) working group [PHENOFISH](https://www.fondationbiodiversite.fr/en/the-frb-in-action/programs-and-projects/le-cesab/phenofish/) that aims to pool data on the biodiversity, morphology, behaviour and ecophysiology of marine and freshwater fishes that have never before been brought together.
## References
...
Owner
- Name: PhenoFish
- Login: PhenoFish
- Kind: organization
- Location: France
- Website: https://www.fondationbiodiversite.fr/en/the-frb-in-action/programs-and-projects/le-cesab/phenofish/
- Repositories: 1
- Profile: https://github.com/PhenoFish
FRB-CESAB Working Group
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 "rphenofish" in publications use:'
type: software
license: GPL-2.0-or-later
title: 'rphenofish: The Title of the Project'
version: 0.0.0.9000
abstract: A paragraph providing a full description of the project (on several lines...)
authors:
- family-names: Casajus
given-names: Nicolas
email: nicolas.casajus@fondationbiodiversite.fr
orcid: https://orcid.org/0000-0002-5537-5294
preferred-citation:
type: manual
title: 'rphenofish: An R package to ...'
authors:
- name: Casajus Nicolas
year: '2023'
notes: R package version 0.0.0.9000
url: https://github.com/PhenoFish/rphenofish
repository-code: https://github.com/PhenoFish/rphenofish
url: https://github.com/PhenoFish/rphenofish
contact:
- family-names: Casajus
given-names: Nicolas
email: nicolas.casajus@fondationbiodiversite.fr
orcid: https://orcid.org/0000-0002-5537-5294
references:
- type: software
title: 'R: A Language and Environment for Statistical Computing'
notes: Depends
url: https://www.R-project.org/
authors:
- name: R Core Team
institution:
name: R Foundation for Statistical Computing
address: Vienna, Austria
year: '2024'
version: '>= 2.10'
- 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: '2024'
- 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: '2024'
- 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: '2024'
- type: software
title: viridisLite
abstract: 'viridisLite: Colorblind-Friendly Color Maps (Lite Version)'
notes: Imports
url: https://sjmgarnier.github.io/viridisLite/
repository: https://CRAN.R-project.org/package=viridisLite
authors:
- family-names: Garnier
given-names: Simon
email: garnier@njit.edu
year: '2024'
- 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: '2024'
- type: software
title: rmarkdown
abstract: 'rmarkdown: Dynamic Documents for R'
notes: Suggests
url: https://pkgs.rstudio.com/rmarkdown/
repository: https://CRAN.R-project.org/package=rmarkdown
authors:
- family-names: Allaire
given-names: JJ
email: jj@posit.co
- family-names: Xie
given-names: Yihui
email: xie@yihui.name
orcid: https://orcid.org/0000-0003-0645-5666
- family-names: Dervieux
given-names: Christophe
email: cderv@posit.co
orcid: https://orcid.org/0000-0003-4474-2498
- family-names: McPherson
given-names: Jonathan
email: jonathan@posit.co
- family-names: Luraschi
given-names: Javier
- family-names: Ushey
given-names: Kevin
email: kevin@posit.co
- family-names: Atkins
given-names: Aron
email: aron@posit.co
- family-names: Wickham
given-names: Hadley
email: hadley@posit.co
- family-names: Cheng
given-names: Joe
email: joe@posit.co
- family-names: Chang
given-names: Winston
email: winston@posit.co
- family-names: Iannone
given-names: Richard
email: rich@posit.co
orcid: https://orcid.org/0000-0003-3925-190X
year: '2024'
- 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: '2024'
version: '>= 3.0.0'