mregions2

Access the Marine Regions Gazetteer and the Marine Regions Data Products in R. Maintained by @salvafern.

https://github.com/ropensci/mregions2

Science Score: 26.0%

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

○
CITATION.cff file
✓
codemeta.json file
Found codemeta.json file
✓
.zenodo.json file
Found .zenodo.json file
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DOI references
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Academic publication links
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Committers with academic emails
○
Institutional organization owner
○
JOSS paper metadata
○
Scientific vocabulary similarity
Low similarity (17.2%) to scientific vocabulary

Last synced: 10 months ago · JSON representation

Repository

Access the Marine Regions Gazetteer and the Marine Regions Data Products in R. Maintained by @salvafern.

Basic Info

Host: GitHub
Owner: ropensci
License: other
Language: R
Default Branch: main
Homepage: https://docs.ropensci.org/mregions2/
Size: 7.02 MB

Statistics

Stars: 9
Watchers: 5
Forks: 4
Open Issues: 0
Releases: 4

Created about 4 years ago · Last pushed about 1 year ago

Metadata Files

Readme Changelog Contributing License Codemeta

README.Rmd

---
output: github_document
df_print: tibble
---

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

# mregions2



[![Funding](https://img.shields.io/static/v1?label=powered+by&message=lifewatch.be&labelColor=1a4e8a&color=f15922)](https://lifewatch.be) [![Status at rOpenSci Software Peer Review](https://badges.ropensci.org/590_status.svg)](https://github.com/ropensci/software-review/issues/590) [![CRAN_Status_Badge](https://www.r-pkg.org/badges/version/mregions2)](https://cran.r-project.org/package=mregions2) [![R-CMD-check](https://github.com/ropensci/mregions2/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/ropensci/mregions2/actions/workflows/R-CMD-check.yaml) [![Codecov test coverage](https://codecov.io/gh/ropensci/mregions2/branch/main/graph/badge.svg)](https://app.codecov.io/gh/ropensci/mregions2?branch=main)



![](https://user-images.githubusercontent.com/54405067/156809171-1487bb9f-35af-4418-8e2f-93c24a59aad0.gif)

`mregions2` offers a streamlined interface to access data from [Marine Regions](https://marineregions.org) in R for researchers, marine scientists, and geospatial analysts seeking marine geographical information

Marine Regions offers two key resources: the [Marine Regions Gazetteer](https://marineregions.org/gazetteer.php), a list of standardized marine place names with unique identifiers, and the [Marine Regions Data Products](https://marineregions.org/sources.php), including popular features like the world maritime boundaries.

You can find detailed information in the articles online:

-   [Introduction to mregions2](https://docs.ropensci.org/mregions2/articles/mregions2.html)
-   [Why mregions and mregions2?](https://docs.ropensci.org/mregions2/articles/why_mregions2.html)
- [Marine Regions Data Products Ontology](https://docs.ropensci.org/mregions2/articles/mrp_ontology.html)
-   [mregions2 as RDF](https://docs.ropensci.org/mregions2/articles/mregions2-rdf.html)

## Installation

You can install the latest CRAN version with:

``` r
install.packages("mregions2")
```

Or install the development version of mregions2 from GitHub with:

``` r
# install.packages("devtools")
devtools::install_github("ropensci/mregions2", build_vignettes = TRUE)
```

Load the library with:

```{r, results='hide', warning=FALSE, message=FALSE}
library(mregions2)
```

The function `mrp_view()` requires two extra packages that are not listed as Imports, hence they are not installed along with `mregions2` but you must install yourself:

``` r
install.packages("leaflet")
install.packages("leaflet.extras2")
```
Some of the examples below use the pipe operator `%>%`. Install and load `magrittr`:

```{r}
# install.packages("magrittr")
library(magrittr)
```

## Query the Marine Regions Gazetteer

The [Marine Regions Gazetteer](https://marineregions.org/gazetteer.php) is a standard list of marine georeferenced place names.

> Gazetteer: a dictionary of geographical names.



You can search the Gazetteer in many ways:

Search by free text:

```{r}
gaz_search("Belgian Part of the North Sea")
```

Search by unique identifier. See `?MRGID`:

```{r}
gaz_search(3293)
```

Search by location:

```{r}
gaz_search(x = 2.927, y = 51.21551)
```

Search by place type:

```{r}
gaz_search_by_type("EEZ")
```

Search by authortative source:

```{r}
gaz_search_by_source("Flanders Marine Institute (VLIZ)")
```

The list of place types and sources are available with `gaz_types()` and `gaz_sources()` respectively.

You can add the geometry of the Gazetteer entries with `gaz_geometry()`:

```{r gaz2}
# Get a record and turn into a sf object with geometry
gaz_search(3293) %>% gaz_geometry()

# Or get only the geometry 
gaz_geometry(3293, format = "sfc")
```

The entries of the Marine Regions Gazetteer are organized hierarchically. You can browse this hierarchy up and down with `gaz_relations()`

```{r gaz3}
# Get all relations
gaz_search(3293) %>% gaz_relations()

# Or get the relations directly
gaz_relations(3293)
```

## Marine Regions Data Products

In addition to the Marine Regions Gazetteer, the Marine Regions Team creates and hosts geographical Data Products, being the most popular one the [Marine Regions Maritime Boundaries](https://marineregions.org/eez.php).

An overview of all available products can be consulted with `mrp_list`

```{r prod_list}
mrp_list
```

Their attributes are explained in the [Marine Regions Data Products Ontology article](https://docs.ropensci.org/mregions2/articles/mrp_ontology.html), or simply run `mrp_ontology`

```{r prod_ontology}
mrp_ontology
```

You can visualize the Marine Regions Data Products with `mrp_view()`. It opens an interactive `leaflet::leaflet` viewer.

```{r prod1, eval=FALSE}
mrp_view("eez")
```

![](https://raw.githubusercontent.com/ropensci/mregions2/main/man/figures/README-prod1-1.png)

Or you can download and read the data products into R with `mrp_get()`

```{r prod2, eval = FALSE}
mrp_get("eez")
```

You can specify the download path in the `path` argument:

```{r prod3, eval = FALSE}
mrp_get("eez", path = "path/to/data")
```

Get to know more in the [Get Started vignette](https://docs.ropensci.org/mregions2/articles/mregions2.html).

```{r, include=FALSE, echo=FALSE}
# Copy and paste output - do not include to not add more deps
get_md <- function(pkgs){
  get_titles <- function(x) packageDescription(x, fields = "Title")
  titles <- purrr::map_chr(pkgs, get_titles)
  cat(glue::glue("* [{pkgs}](https://docs.ropensci.org/{pkgs}): _{titles}_. \n"), sep = "\n")
}
```

## Related packages

### Marine biodiversity data

The main purpose of Marine Regions is to serve as the geographical backbone for the World Register of Marine Species (WoRMS), an authoritative classification and catalogue of marine names. Here is a list of R packages to access Marine taxonomical and biogeographic data that can be combined with data from `mregions2`:

```{r, include=FALSE, echo=FALSE}
get_md(c("worrms", "eurobis", "robis", "rgbif"))
# Change links manually
```
* [worrms](https://docs.ropensci.org/worrms/): _World Register of Marine Species (WoRMS) Client_. 
* [eurobis](https://lifewatch.github.io/eurobis/): _Download data from EurOBIS using the LifeWatch/EMODnet-Biology Web Feature Services_. 
* [robis](https://cran.r-project.org/package=robis): _Ocean Biodiversity Information System (OBIS) Client_. 
* [rgbif](https://docs.ropensci.org/rgbif/): _Interface to the Global Biodiversity Information Facility API_. 

### More geographical data

There are other R packages that allow to access other gazetteers and boundaries data. Here is a non-exhaustive list:

```{r, include=FALSE, echo=FALSE}
get_md(c("geonames", "osmdata", "osmextract", "rnaturalearth"))
```

* [geonames](https://docs.ropensci.org/geonames/): _Interface to the "Geonames" Spatial Query Web Service_. 
* [osmdata](https://docs.ropensci.org/osmdata/): _Import 'OpenStreetMap' Data as Simple Features or Spatial
Objects_. 
* [osmextract](https://docs.ropensci.org/osmextract/): _Download and Import Open Street Map Data Extracts_. 
* [rnaturalearth](https://docs.ropensci.org/rnaturalearth/): _World Map Data from Natural Earth_.


## Citation

```{r citation, cache=FALSE, collapse=FALSE, comment="", results='asis'}
citation("mregions2")
```

## License

MIT. See `LICENSE.md`

This software is developed for scientific, educational and research purposes. It is not meant to be used for legal, economical (in the sense of exploration of natural resources) or navigational purposes. See the [Marine Regions disclaimer](https://marineregions.org/disclaimer.php) for more information.

## Code of Conduct

Please note that this package is released with a [Contributor Code of Conduct](https://ropensci.org/code-of-conduct/). By contributing to this project, you agree to abide by its terms.

Owner

Name: rOpenSci
Login: ropensci
Kind: organization
Email: info@ropensci.org
Location: Berkeley, CA

Website: https://ropensci.org/
Twitter: rOpenSci
Repositories: 307
Profile: https://github.com/ropensci

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Commits: 26
Committers: 3
Avg Commits per committer: 8.667
Development Distribution Score (DDS): 0.115

Top Committers

Name	Email	Commits
salvafern	s**z@v**e	154
LottePohl	l**l@i**u	41
Julia Gustavsen	j**n@g**m	3
bart-v	b**v@v**e	2
Maëlle Salmon	m**n@y**e	1

Committer Domains (Top 20 + Academic)

vliz.be: 2 imbrsea.eu: 1

Issues and Pull Requests

Last synced: 10 months ago

All Time

Total issues: 27
Total pull requests: 2
Average time to close issues: 5 months
Average time to close pull requests: 8 days
Total issue authors: 7
Total pull request authors: 2
Average comments per issue: 3.48
Average comments per pull request: 0.5
Merged pull requests: 2
Bot issues: 4
Bot pull requests: 0

Past Year

Issues: 1
Pull requests: 1
Average time to close issues: N/A
Average time to close pull requests: 2 days
Issue authors: 1
Pull request authors: 1
Average comments per issue: 0.0
Average comments per pull request: 0.0
Merged pull requests: 1
Bot issues: 0
Bot pull requests: 0

View more stats

Top Authors

Issue Authors

salvafern (11)
github-actions[bot] (4)
lottepohl (3)
peterdesmet (2)
lawleyjw (1)
jflowernet (1)

Pull Request Authors

maelle (2)
jooolia (1)

Top Labels

Issue Labels

enhancement (7) bug (6) help wanted (1)

Pull Request Labels

Packages

Total packages: 2
Total downloads:
- cran 180 last-month

Total dependent packages: 0
(may contain duplicates)
Total dependent repositories: 0
(may contain duplicates)
Total versions: 6
Total maintainers: 1

proxy.golang.org: github.com/ropensci/mregions2

Documentation: https://pkg.go.dev/github.com/ropensci/mregions2#section-documentation
License: other
Latest release: v1.1.1
published almost 2 years ago

Versions: 4
Dependent Packages: 0
Dependent Repositories: 0

Rankings

Dependent packages count: 5.4%

Average: 5.6%

Dependent repos count: 5.8%

Last synced: 10 months ago

cran.r-project.org: mregions2

Access Data from Marine Regions: Gazetteer & Data Products

Homepage: https://github.com/ropensci/mregions2
Documentation: http://cran.r-project.org/web/packages/mregions2/mregions2.pdf
License: MIT + file LICENSE
Latest release: 1.1.2
published over 1 year ago

Versions: 2
Dependent Packages: 0
Dependent Repositories: 0
Downloads: 180 Last month

Rankings

Dependent packages count: 28.3%

Dependent repos count: 34.9%

Average: 50.0%

Downloads: 86.7%

Maintainers (1)

salvador.fernandez@vliz.be

Last synced: 10 months ago

Dependencies

.github/workflows/R-CMD-check-schedule.yaml actions

actions/checkout v3 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/R-CMD-check.yaml actions

actions/checkout v3 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/pkgcheck.yaml actions

ropensci-review-tools/pkgcheck-action main composite

.github/workflows/pkgdown.yaml actions

JamesIves/github-pages-deploy-action v4.4.1 composite
actions/checkout v3 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 v3 composite
actions/upload-artifact v3 composite
r-lib/actions/setup-r v2 composite
r-lib/actions/setup-r-dependencies v2 composite

DESCRIPTION cran

ISOcodes * imports
checkmate * imports
cli * imports
curl * imports
dplyr * imports
glue * imports
httr * imports
httr2 * imports
lubridate * imports
magrittr * imports
memoise * imports
methods * imports
ows4R >= 0.3 imports
purrr * imports
rdflib * imports
sf * imports
utils * imports
wrapr * imports
xml2 * imports
httptest * suggests
httptest2 * suggests
jsonlite * suggests
knitr * suggests
leaflet * suggests
leaflet.extras2 * suggests
mapview * suggests
mregions * suggests
rmarkdown * suggests
testthat * suggests
wk * suggests

ecosyste.ms

Data

Tools

Indexes

Applications

Experiments

Open Source Science

mregions2

Science Score: 26.0%

Repository

Basic Info

Statistics

Metadata Files

README.Rmd

Owner

CodeMeta (codemeta.json)

GitHub Events

Total

Last Year

Committers

All Time

Past Year

Top Committers

Committer Domains (Top 20 + Academic)

Issues and Pull Requests

All Time

Past Year

Top Authors

Issue Authors

Pull Request Authors

Top Labels

Issue Labels

Pull Request Labels

Packages

proxy.golang.org: github.com/ropensci/mregions2

Rankings

cran.r-project.org: mregions2

Rankings

Maintainers (1)

Dependencies