classify_ARG_mechanisms: classify_ARG_mechanisms

Description Usage Arguments Value

View source: R/classify_ARGs.R

Description

Classifies ARGs mechanism of function from the CARD database using either accession number or gene name.

Usage

1
classify_ARG_mechanisms(phyloseq_obj, genes, obo = NULL)

Arguments

phyloseq_obj

A phyloseq-class object. It must contain sample_data()) with information about each sample, and it must contain tax_table()) with information about each taxa/gene.

genes

Column name or number in the tax_table where ARGs are as gene names or ARO accession number.

obo

an object processed with processOBO.

Value

phyloseq-object


schuyler-smith/schuylR documentation built on Feb. 8, 2022, 12:25 p.m.