inputMicro: Quickly import microbiome data and bulding phyloseq object

In taowenmicro/ggClusterNet:

Quickly import microbiome data and bulding phyloseq object

Description

Quickly import microbiome data and bulding phyloseq object

Usage

inputMicro(
  otu = NULL,
  tax = NULL,
  map = NULL,
  tree = NULL,
  ps = NULL,
  group = "Group"
)

Arguments

otu	dataframe,otu table
tax	data.frame, tax table
map	matrix or dataframe, including sampleID and groupID;
tree	Evolutionary tree
ps	a phyloseq object
group	column name for groupID.

Value

a phyloseq object

Author(s)

Contact: Tao Wen [e-mail] Jun Yuan [e-mail]

References

Yuan J, Zhao J, Wen T, Zhao M, Li R, Goossens P, Huang Q, Bai Y, Vivanco JM, Kowalchuk GA, Berendsen RL, Shen Q Root exudates drive the soil-borne legacy of aboveground pathogen infection Microbiome 2018,DOI: doi: 10.1186/s40168-018-0537-x

Examples

data(otu)
data(tax)
data(map)
inputMicro(otu,tax,map,tree,group  = group)

taowenmicro/ggClusterNet documentation built on March 29, 2024, 1:32 a.m.