inputMicro: Quickly import microbiome data and bulding phyloseq object

In taowenmicro/easyMicrobiome:

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/easyMicrobiome documentation built on Nov. 10, 2020, 10:18 p.m.