Calculate Abundance-occupancy_relationship

Plot a AOR

aor(otutab, ...)

# S3 method for class 'data.frame'
aor(
  otutab,
  top_r = 0.7,
  ocup_n = ceiling(0.8 * ncol(otutab)),
  special_n = ceiling(0.1 * ncol(otutab)),
  ...
)

# S3 method for class 'AOR'
plot(x, ...)

Arguments

otutab: otutab
...: add
top_r: percentage of top relative abundance
ocup_n: percentage of top occupied
special_n: how many occupancy define as specialists
x: AOR object

Value

AOR

ggplot

References

Barberán, A., Bates, S. T., Casamayor, E. & Fierer, N. (2012) Using network analysis to explore co-occurrence patterns in soil microbial communities.

Examples

data(otutab, package = "pcutils")
aor(otutab) -> AOR
plot(AOR)
#> Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0.
#> ℹ Please use `linewidth` instead.
#> ℹ The deprecated feature was likely used in the pctax package.
#>   Please report the issue at <https://github.com/Asa12138/pctax/issues>.
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