tax_glom_wtTop: Combine microbiome data by classification level
In taowenmicro/ggClusterNet:

tax_glom_wtTop

R Documentation

Combine microbiome data by classification level

Description

Combine microbiome data by classification level

Usage

tax_glom_wtTop(ps = ps, ranks = "Phylum", Top = 10)

Arguments

`ps`	phyloseq object
`ranks`	tax of microbiome data,could be one of Phylum, Order, Class, Genus ta al.

Value

S4 phyloseq abject

Author(s)

Contact: Tao Wen 2018203048@njau.edu.cn Jun Yuan junyuan@njau.edu.cn

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

tax_glom_wtTop(ps = ps,ranks = "Genus",Top = 10)
tax_glom_wtTop(ps = ps,ranks = "Class",Top = 10)
tax_glom_wtTop(ps = ps,ranks = "Order",Top = 10)
tax_glom_wtTop(ps = ps,ranks = "Phylum",Top = 10)

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