map_leaflet: Make interactive maps with Leaflet.js

In mapr: Visualize Species Occurrence Data

Description

Make interactive maps with Leaflet.js

Usage

map_leaflet(
  x,
  lon = "longitude",
  lat = "latitude",
  color = NULL,
  size = 13,
  name = NULL,
  ...
)

Arguments

x	The data. An object of class occdat, occdatind, gbif, gbif_data, SpatialPoints, SpatialPointsDataFrame, or data.frame. The package spocc needed for the first two, and rgbif needed for the third. When data.frame input, any number of columns allowed, but with at least the following: name (the taxonomic name), latitude (in dec. deg.), longitude (in dec. deg.)
lon, lat	(character) Longitude and latitude variable names. Ignored unless data.frame input to x parameter. We attempt to guess, but if nothing close, we stop. Default: longitude and latitude
color	Default color of your points.
size	point size, Default: 13
name	(character) the column name that contains the name to use in creating the map. If left NULL we look for a "name" column.
...	Ignored

Details

We add popups by default, and add all columns to the popup. The html is escaped with htmltools::htmlEscape()

Value

a Leaflet map in Viewer in Rstudio, or in your default browser otherwise

Examples

## Not run: 
## spocc
library("spocc")
(out <- occ(query='Accipiter striatus', from='gbif', limit=50,
  has_coords=TRUE))
### with class occdat
map_leaflet(out)
### with class occdatind
map_leaflet(out$gbif)
### use occ2sp
map_leaflet(occ2sp(out))

## rgbif
if (requireNamespace("rgbif")) {
library("rgbif")
res <- occ_search(scientificName = "Puma concolor", limit = 100)
map_leaflet(res)
}

## SpatialPoints class
library("sp")
df <- data.frame(longitude = c(-120,-121),
                 latitude = c(41, 42), stringsAsFactors = FALSE)
x <- SpatialPoints(df)
map_leaflet(x)

## SpatialPointsDataFrame class
if (requireNamespace("rgbif")) {
library("rgbif")
### occ_search() output
res <- occ_search(scientificName = "Puma concolor", limit = 100)
x <- res$data
library("sp")
x <- x[stats::complete.cases(x$decimalLatitude, x$decimalLongitude), ]
coordinates(x) <- ~decimalLongitude+decimalLatitude
map_leaflet(x)

### occ_data() output
res <- occ_data(scientificName = "Puma concolor", limit = 100)
map_leaflet(res)
}

#### many taxa
res <- occ_data(scientificName = c("Puma concolor", "Quercus lobata"), 
   limit = 30)
res
map_leaflet(res)


## data.frame
df <- data.frame(name = c('Poa annua', 'Puma concolor'),
                 longitude = c(-120,-121),
                 latitude = c(41, 42), stringsAsFactors = FALSE)
map_leaflet(df)

# many species
library("spocc")
spp <- c('Danaus plexippus', 'Accipiter striatus', 'Pinus contorta')
dat <- occ(spp, from = 'gbif', limit = 50, has_coords = TRUE)
map_leaflet(dat)
map_leaflet(dat, color = c('#AFFF71', '#AFFF71', '#AFFF71'))
map_leaflet(dat, color = c('#976AAE', '#6B944D', '#BD5945'))

# add a convex hull
## map_leaflet(dat) %>% hull()  # using pipes
hull(map_leaflet(dat))

## End(Not run)

mapr documentation built on Oct. 23, 2020, 8:22 p.m.