Biodiversity Data Visualizations using R. This package offers a set of functions to visualize biodiversity occurrence data through R. Please check the paper describing the package Barve, V., and J. Otegui. 2016. bdvis: visualizing biodiversity data in R. Bioinformatics:btw333. https://academic.oup.com/bioinformatics/article/32/19/3049/2196391
The development of the package started as a Google Summer of Code project.
install.packages("bdvis")
require(bdvis)
(for the purpose of building examples)
For the sake of examples, we will work with some data obtained using the package
rinat
install.packages("rinat")
require(rinat) # Data download might take some time
inat <- get_inat_obs_project("reptileindia")
inat <- format_bdvis(inat,source='rinat')
inat <- inat[,c("id","Date_collected", "Latitude", "Longitude",
"Scientific_name", "Cell_id", "Centi_cell_id")]
bdsummary(inat)
mapgrid(inat,ptype="records",bbox=c(60,100,5,40))
mapgrid(inat,ptype="records",bbox=c(60,100,5,40),gridscale=0.1)
tempolar(inat, color="green", title="iNaturalist daily", plottype="r", timescale="d")
tempolar(inat, color="blue", title="iNaturalist weekly", plottype="p", timescale="w")
tempolar(inat, color="red", title="iNaturalist monthly", plottype="r", timescale="m")
inat=gettaxo(inat)
taxotree(inat)
chronohorogram(inat)
comp=bdcomplete(inat,recs=5)
mapgrid(comp,ptype="complete",bbox=c(60,100,5,40))
distrigraph(inat,ptype="cell",col="tomato")
distrigraph(inat,ptype="species",ylab="Species")
distrigraph(inat,ptype="efforts",col="red")
distrigraph(inat,ptype="efforts",col="red",type="s")
distrigraph(inat,ptype="efforts",col="red",cumulative=T,type="l")
distrigraph(inat,ptype="effortspecies",col="red",cumulative=T,type="l")
bdcalendarheat(inat)