ggiNEXT_dare: ggplot2 extension for an iNEXT object

In ckw0507/iNEXTdare: What the Package Does (One Line, Title Case)

Description

ggiNEXT: the ggplot extension for iNEXT Object to plot sample-size- and coverage-based rarefaction/extrapolation curves along with a bridging sample completeness curve

Usage

ggiNEXT_dare(x, type = 1, se = TRUE, facet.var = "order", color.var = "site")

Arguments

x	an iNEXT object computed by iNEXT.
type	three types of plots: sample-size-based rarefaction/extrapolation curve (type = 1); sample completeness curve (type = 2); coverage-based rarefaction/extrapolation curve (type = 3).
se	a logical variable to display confidence interval around the estimated sampling curve.
facet.var	create a separate plot for each value of a specified variable: no separation (facet.var="none"); a separate plot for each diversity order (facet.var="order"); a separate plot for each site (facet.var="site"); a separate plot for each combination of order x site (facet.var="both").
color.var	create curves in different colors for values of a specified variable: all curves are in the same color (color.var="none"); use different colors for diversity orders (color.var="order"); use different colors for sites (color.var="site"); use different colors for combinations of order x site (color.var="both").
grey	a logical variable to display grey and white ggplot2 theme.
...	other arguments passed on to methods. Not currently used.

Value

a ggplot2 object

Examples

data(spider)
# single-assemblage abundance data
out1 <- iNEXT(spider$Girdled, q=0, datatype="abundance")
ggiNEXT(x=out1, type=1)
ggiNEXT(x=out1, type=2)
ggiNEXT(x=out1, type=3)

## Not run: 
# single-assemblage incidence data with three orders q
data(ant)
size <- round(seq(10, 500, length.out=20))
y <- iNEXT(ant$h500m, q=c(0,1,2), datatype="incidence_freq", size=size, se=FALSE)
ggiNEXT(y, se=FALSE, color.var="order")

# multiple-assemblage abundance data with three orders q
z <- iNEXT(spider, q=c(0,1,2), datatype="abundance")
ggiNEXT(z, facet.var="site", color.var="order")
ggiNEXT(z, facet.var="both", color.var="both")

## End(Not run)

ckw0507/iNEXTdare documentation built on Dec. 27, 2019, 2:21 a.m.