malariaAtlas (version 0.0.4)

autoplot_MAPraster: Quickly visualise Rasters downloaded from MAP

Description

autoplot_MAPraster is a wrapper for /code/linkautoplot.MAPraster that calls as.MAPraster to allow automatic map creation for RasterLayer/RasterStack objects downloaded from MAP.

Usage

autoplot_MAPraster(object, ...)

Arguments

object

RasterLayer/RasterStack object to be visualised.

...

other optional arguments to autoplot.MAPraster (e.g. shp_df, legend_title, page_title...)

Value

autoplot_MAPraster returns a list of plots (gg objects) for each supplied raster.

See Also

getRaster:

to download rasters directly from MAP.

as.MAPraster:

to convert RasterLayer/RasterStack objects into a 'MAPraster' object (data.frame) for easy plotting with ggplot.

autoplot.MAPraster:

to quickly visualise MAPraster objects created using /codeas.MAPraster.

Examples

# NOT RUN {
#Download PfPR2-10 Raster (Bhatt et al 2015) and raw survey points for Madagascar in
#  2013 and visualise these together on a map.

# Download madagascar shapefile to use for raster download.
MDG_shp <- getShp(ISO = "MDG", admin_level = "admin0")

# Download PfPR2-10 Raster for 2013 & plot this
MDG_PfPR2_10 <- getRaster(surface = "Plasmodium falciparum PR2-10", shp = MDG_shp, year = 2013)
p <- autoplot_MAPraster(MDG_PfPR2_10)

# Download raw PfPR survey points & plot these over the top of the raster
pr <- getPR(country = c("Madagascar"), species = "Pf")
p[[1]] +
geom_point(data = pr[pr$year_start==2013,],
           aes(longitude, latitude, fill = positive / examined, size = examined), shape = 21) +
  scale_size_continuous(name = "Survey Size") +
  scale_fill_distiller(name = "PfPR", palette = "RdYlBu") +
  ggtitle("Raw PfPR Survey points\n + Modelled PfPR 2-10 in Madagascar in 2013")
# }
# NOT RUN {

# Download global raster of G6PD deficiency (Howes et al 2012) and visualise this on a map.
# }
# NOT RUN {
G6PDd_global <- getRaster(surface = "G6PD Deficiency Allele Frequency")
autoplot_MAPraster(G6PDd_global)
# }
# NOT RUN {
# }