abundPlots: Make taxonomic abundance plot

In samuelVJrobinson/SRtools: Helper Functions by SR

Make taxonomic abundance plot

Description

Function to make bee taxonomic abundance plots (species, genus, family level counts) from data frame.

Usage

abundPlots(
  d,
  family = family,
  genus = genus,
  species = NULL,
  genSpp = NULL,
  colourSet = "Set1",
  scaleYtext = c(1, 1, 1),
  keepSpp = TRUE,
  returnPlots = FALSE
)

Arguments

d	Data frame or tibble
family	Family column
genus	Genus column
species	Species column - can also use genSpp column (see below)
genSpp	GenSpp column (optional - create using makeGenSpp)
colourSet	Colour set from ColourBrewer (default = "Set1")
scaleYtext	Scaling factor for y-axis text (default = c(1,1,1))
keepSpp	Keep morphospecies? (default = TRUE)
returnPlots	Should plots be returned in a list instead? (default = FALSE)

Value

A ggarrange (ggplot) object, showing bee abundances split up by species, genus, and family

Examples

dat <- data.frame(f=c('Apidae','Apidae','Apidae','Colletidae','Andrenidae','Andrenidae'),
    g=c('Bombus','Bombus','Apis','Hylaeus','Lasioglossum','Lasioglossum'),
    s=c('rufocinctus','rufocinctus','mellifera','annulatus','zonulum','spp.'))
abundPlots(dat,f,g,s,keepSpp=FALSE)
abundPlots(dat,f,g,s,keepSpp=TRUE)

samuelVJrobinson/SRtools documentation built on Nov. 11, 2024, 12:37 p.m.