boyanangelov / bdvis

Biodiversity data Visualizations in R

bdvis

Note: this is a fork of the original repo, containing tools for interactive analysis.

Installation

devtools::install_github("boyanangelov/bdvis")
library(bdvis)

Packages bdvis suggests

(for the purpose of building examples)

• [rinat] (https://github.com/ropensci/rinat)

Functions currently available

For the sake of examples, we will work with some data obtained using the package rinat

install.packages("rinat")
library(rinat)  # Data download might take some time
inat=get_inat_obs_project("reptileindia")
inat=format_bdvis(inat,source='rinat')

bdsummary

bdsummary(inat)

mapgrid

mapgrid(inat,ptype="records",bbox=c(60,100,5,40),region=c("India"))
mapgrid(inat,ptype="records",bbox=c(60,100,5,40),region=c("India"),gridscale=0.1)

tempolar

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")

taxotree

inat=gettaxo(inat)
taxotree(inat)

chronohorogram

chronohorogram(inat)

bdcomplete

comp=bdcomplete(inat,recs=5)
mapgrid(comp,ptype="complete",bbox=c(60,100,5,40),region=c("India"))

distrigraph

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

bdcalendarheat(inat)

run_gui

If you are more comfortable with a Graphical User Interface (GUI), you can use this function.

run_gui()