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Measure Diversity by Comparing to Simulated Assemblages

Usage

# S4 method for DiversityIndex
simulate(
  object,
  n = 1000,
  step = 1,
  interval = c("percentiles", "student", "normal"),
  level = 0.8,
  progress = getOption("tabula.progress")
)

Arguments

object

A DiversityIndex object.

n

A non-negative integer giving the number of bootstrap replications.

step

An integer giving the increment of the sample size.

interval

A character string giving the type of confidence interval to be returned. It must be one "percentiles" (sample quantiles, as described in Kintigh 1984; the default), "student" or "normal". Any unambiguous substring can be given.

level

A length-one numeric vector giving the confidence level.

progress

A logical scalar: should a progress bar be displayed?

Value

Returns a DiversityIndex object.

References

Kintigh, K. W. (1984). Measuring Archaeological Diversity by Comparison with Simulated Assemblages. American Antiquity, 49(1), 44-54. doi:10.2307/280511 .

Author

N. Frerebeau

Examples

# \donttest{
## Coerce data to a count matrix
data("chevelon", package = "folio")

## Assemblage diversity size comparison
## Warning: this may take a few seconds!
h <- heterogeneity(chevelon, method = "shannon")
h_sim <- simulate(h)
plot(h_sim)


r <- richness(chevelon, method = "count")
r_sim <- simulate(r)
plot(r_sim)

# }