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README.Rmd
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README.Rmd
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---
output: github_document
editor_options:
chunk_output_type: console
---
<!-- README.md is generated from README.Rmd. Please edit that file -->
```{r setup, include = FALSE}
knitr::opts_chunk$set(
collapse = TRUE,
comment = "#>",
fig.path = "man/figures/README-",
out.width = "100%",
fig.width = 7, fig.height = 7
)
library(dplyr)
library(sf)
```
# measoshapes
The goal of measoshapes is to provide regionalization boundaries for MEASO.
There are several in-built data sets currently at **version 05**. See below where each is explained.
## Installation
To install measoshapes from Github use
```R
## install.packages("remotes")
remotes::install_github("AustralianAntarcticDivision/measoshapes")
```
## Map
To map the regions with base plotting (with the [sf package](https://r-spatial.github.io/sf)).
First join the names and properties to the geometry, we also group the features so that the seam at the anti-meridian is
removed.
```{r join}
library(measoshapes)
library(dplyr)
library(sf)
measo <- measo_regions05 %>% group_by(name) %>% summarize() %>%
inner_join(measo_names)
```
Now, plot the geometry with the offical colours and make sure no 'reset' so that we can add other layers.
```{r plot}
plot(st_geometry(measo), col = measo$fill, reset = FALSE, border = NA)
```
A very simple coastline data is added.
```{r coast}
coast <- rnaturalearth::ne_countries(scale = "medium", returnclass = "sf") %>% dplyr::filter(sovereignt == "Antarctica")
coast <- st_transform(coast,
st_crs(measo))
plot(st_geometry(measo), col = measo$fill, reset = FALSE, border = NA)
plot(st_geometry(coast), col = "#808080", add = TRUE, border = NA)
```
## Map with ggplot2
A ggplot2 example. To use the literal fill colours we need `scale_fill_identity()`, this is ggplot's "straight-through" mechanism.
```{r}
library(ggplot2)
ggplot(measo, aes(fill = fill)) + geom_sf(colour = NA) + scale_fill_identity() + geom_sf(data = coast, aes(fill = NULL))
```
## Map with SOmap
The [SOmap package](https://github.com/AustralianAntarcticDivision/SOmap) provides some simpler ways of creating and adding to polar maps. Once a map is set up it knows what projection it is in, so we can forget about having to transform the data.
We can add arbitrary data at longitude/latitudes pairs and SOplot knows what to do.
```{r SOmap}
## atm we need a special branch (2020-02-20)
#remotes::install_github("AustralianAntarcticDivision/[email protected]")
library(SOmap)
SOmap(trim = -32) ## set up a polar map
## set overlay to half-transparent
SOplot(st_geometry(measo), border = NA, col = scales::alpha(measo$fill, 0.75)) ## no need to worry about the projection
ll <- cbind(lon = c(147, 100, -10, -80),
lat = c(-42, -50, -70, -50))
SOplot(ll, pch = 1:4, col = viridis::viridis(4), cex = 3, lwd = 4)
## other objects work too (sf, raster, sp)
SOplot(SOmap_data$fronts_park)
SOplot(coast, col = "#808080")
```
## Data sets
There is no code in the measoshapes package, but the package records the creation of
each shapes layer using standard R mechanisms.
There are five datasets, and for normal usage, calculating areas, and making maps we would use the first three. The `_coastline` forms have the continent of Antarctica cut out of the shapes.
* `measonames` a dataframe of the `name`, `sector`, and `zone`
* `measo_regions05_ll_coastline` the polygons with the continent of Antarctica cut out
* `measo_regions05_coastline` the polygons (in polar) with the continent of Antarctica cut out
Two other forms in polar and longitude/latitude form are use for model overlays (for technical reasons).
* `measo_regions05` the polygons of each combination of sector and zone
* `measo_regions05_ll` the polygons in longitude/latitude form
To make a map with these we can use the following code
```{r measo-map}
library(measoshapes)
plot(measo_regions05_ll_coastline, reset = FALSE)
maps::map(add = TRUE, col = "grey", fill = FALSE)
```
To export to shapefile:
```{r exportshp1, eval = FALSE}
st_write(measo_regions05_ll_coastline, "myfile.shp", driver = "SHP")
```
Here we explore the names in more detail. The northern regions are assigned codes that include "T" for **temperate**, but they aren't supposed to be part of MEASO. They share a sector but have no assigned zone. From `colour_values` on zone they get black.
```{r dummy}
par(mar = rep(0.2, 4))
plot(st_geometry(measo_regions05_ll), reset = FALSE,
col = colourvalues::colour_values(measo_names$sector, alpha = 0.5))
cds <- st_coordinates(st_centroid(measo_regions05_ll))
text(cds, lab = measo_names$name, cex = 0.7)
par(xpd = NA)
text(0, -20, "name")
maps::map(add = TRUE)
par(xpd = TRUE)
plot(st_geometry(measo_regions05_ll), reset = FALSE,
col = colourvalues::colour_values(measo_names$zone, alpha = 0.5))
cds <- st_coordinates(st_centroid(measo_regions05_ll))
text(cds, lab = measo_names$zone, cex = 0.7)
par(xpd = NA)
text(0, -20, "zone")
maps::map(add = TRUE)
par(xpd = TRUE)
plot(st_geometry(measo_regions05_ll), reset = FALSE,
col = colourvalues::colour_values(measo_names$zone, alpha = 0.5))
cds <- st_coordinates(st_centroid(measo_regions05_ll))
text(cds, lab = measo_names$sector, cex = 0.7)
par(xpd = NA)
text(0, -20, "sector")
maps::map(add = TRUE)
par(xpd = TRUE)
```
---
Please note that the 'measoshapes' project is released with a
[Contributor Code of Conduct](CODE_OF_CONDUCT.md).
By contributing to this project, you agree to abide by its terms.