Accessing and Validating Marine Environmental Data from SHARK and Related Databases • SHARK4R

Overview

This R package is equipped with a client application designed for integration with API functions. It facilitates access to various databases, including SHARK, SLU Artdatabanken (Dyntaxa), WoRMS, AlgaeBase, IOC-UNESCO Taxonomic Reference List of Harmful Micro Algae, IOC-UNESCO Toxins database, OBIS xylookup web service and Nordic Microalgae. The package serves a dual purpose, supporting both data analysis and automatic quality control of physical, chemical, and marine biological data. Several quality control components, originally developed by Provoost and Bosch (2018), have been adapted for compatibility with the SHARK format.

Installation

Installing SHARK4R requires the remotes package. Install the latest version of SHARK4R from GitHub:

# install.packages("remotes")
remotes::install_github("sharksmhi/SHARK4R", 
                        ref = remotes::github_release(),
                        dependencies = TRUE)

Or install the development version:

# install.packages("remotes")
remotes::install_github("sharksmhi/SHARK4R", 
                        dependencies = TRUE)

Documentation and Tutorials

Website

For detailed information, please visit the project’s webpage.

Tutorials

Explore the features and capabilities of SHARK4R through these tutorials:

Reference

For a detailed overview of all available SHARK4R functions, please visit the reference section:

Function Reference

Repository

For more details and the latest updates, visit the GitHub repository.

License

This package is licensed under the MIT License.

References

Provoost P, Bosch S (2024). obistools: Tools for data enhancement and quality control. Ocean Biodiversity Information System. Intergovernmental Oceanographic Commission of UNESCO. R package version 0.1.0, https://iobis.github.io/obistools/.

SHARK4R: Accessing and Validating Marine Environmental Data from SHARK and Related Databases