aegypti: _Aedes aegypti_ occurrences in Brazil in 2013

In rrrlw/ripserr: Calculate Persistent Homology with Ripser-Based Engines

Aedes aegypti occurrences in Brazil in 2013

Description

A geographic dataset of known occurrences of Aedes aegypti mosquitoes in Brazil, derived from peer-reviewed and unpublished literature and reverse-geocoded to states.

Usage

aegypti

Format

A tibble of 4411 observations and 13 variables:

vector

species identification (aegypti versus albopictus)

occurrence_id

unique occurrence identifier

source_type

published versus unpublished, with reference identifier

location_type

point or polygon location

polygon_admin

admin level or polygon size; -999 for point locations

y

latitudinal coordinate of point or polygon centroid

x

longitudinal coordinate of point or polygon centroid

status

established versus transient population

state_name

name of reverse-geolocated state

state_code

two-letter state code

Source

http://dx.doi.org/10.5061/dryad.47v3c

Examples

# calculate persistence data for occurrences in Acre
acre_coord <- aegypti[aegypti$state_code == "AC", c("x", "y"), drop = FALSE]
acre_rips <- vietoris_rips(acre_coord)
plot.new()
plot.window(
  xlim = c(0, max(acre_rips$death)),
  ylim = c(0, max(acre_rips$death)),
  asp = 1
)
axis(1L)
axis(2L)
abline(a = 0, b = 1)
points(acre_rips[acre_rips$dim == 0L, c("birth", "death")], pch = 16L)
points(acre_rips[acre_rips$dim == 1L, c("birth", "death")], pch = 17L)

rrrlw/ripserr documentation built on July 12, 2022, 11:13 a.m.