DiversityCurve-class - S4 class defining diversity curve

Description

DiversityCurve defines diversity (D) scores over multiple diversity orders (Q).

Usage

"print"(x)
"plot"(x, y, ...)

Arguments

x
DiversityCurve object
y
ignored.
arguments to pass to plotDiversityCurve.

Slots

data
data.frame defining the diversity curve with the following columns:
  • GROUP: group label.
  • Q: diversity order.
  • D: mean diversity index over all bootstrap realizations.
  • D_SD: standard deviation of the diversity index over all bootstrap realizations.
  • D_LOWER: diversity lower confidence inverval bound.
  • D_UPPER: diversity upper confidence interval bound.
  • E: evenness index calculated as D divided by D at Q=0.
  • E_LOWER: evenness lower confidence inverval bound.
  • E_UPPER: eveness upper confidence interval bound.
groups
character vector of groups retained in the diversity calculation.
n
numeric vector indication the number of sequences sampled from each group.
nboot
number of bootstrap realizations performed.
ci
confidence interval defining the upper and lower bounds (a value between 0 and 1).