Calculate a_diversity of otutab — a_diversity • pctax

Calculate a_diversity of otutab

a_diversity(otutab, ...)

# S3 method for data.frame
a_diversity(
  otutab,
  method = c("richness", "shannon"),
  tree = NULL,
  digits = 4,
  ...
)

# S3 method for pc_otu
a_diversity(otutab, method = "all", tbl = "otutab", ...)

# S3 method for numeric
a_diversity(otutab, ...)

Arguments

otutab: numeric
...: pass to a_diversity.data.frame
method: one of "all","richness","chao1","ace","gc","shannon","simpson","pd","pielou"
tree: a iphylo object match the rownames of otutab
digits: maintance how many digits
tbl: which table

Value

a a_res object

Examples

data(otutab, package = "pcutils")
a_diversity(otutab) -> a_res
plot(a_res, "Group", metadata)