a_diversity: Calculate a_diversity of otutab

In pctax: Professional Comprehensive Omics Data Analysis

Calculate a_diversity of otutab

Description

Calculate a_diversity of otutab

Usage

a_diversity(otutab, ...)

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

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

## S3 method for class '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)

pctax documentation built on May 29, 2024, 10:03 a.m.