Table 2 Outline of malariaAtlas functions

‘List’ available data

listData

Wrapper for below functions, returning a data.frame outlining data availability

–

data.frame

listPoints

Return a data.frame listing countries with parasite rate survey points

Point data

data.frame

listShp

Return a data.frame listing administrative units with shapefiles available to download

Shapefile

data.frame

listRaster

Return a data.frame listing rasters available to download

Raster

data.frame

‘Get’ available data

getPR

Download parasite rate survey data for specified location(s) and species

Point data

data.frame; pr.points ^a

getShp

Download shapefiles for specified location(s) and administrative level(s)

Shapefile

SpatialPolygon(s); data.frame; mapShp ^a

getRaster

Download specified rasters for specified location(s) and year(s)

Raster

RasterLayer; RasterBrick; RasterStack; data.frame; mapRaster ^a

‘Autoplot’ downloaded data

autoplot.pr.points

Quickly visualise parasite rate survey locations and raw PR values for data downloaded using malariaAtlas

Point data

gg

autoplot.mapShp

Quickly visualise shapefiles downloaded using malariaAtlas

Shapefile

gg

autoplot.mapRaster

Quickly visualise rasters downloaded using malariaAtlas

Raster

gg/list

Utility functions

extractRaster

Extract values from specified rasters at specified point locations (lat/long)

Point data

data.frame

convertPrevalence ^b

Convert parasite rate from a given age-range to another

Prevalence

numeric

as.mapShp

Convert SpatialPolygon or SpatialPolygons objects to mapShp^a objects

Shapefile

mapShp^a; data.frame

as.mapRaster

Convert objects of RasterLayer; RasterBrick; RasterStack classes or a list of RasterBrick/RasterStacks to mapRaster^a objects

Raster

mapRaster^a; data.frame