mgFeatures-class: Class mgFeature

In metagenomeFeatures: Exploration of marker-gene sequence taxonomic annotations

Description

Class defines taxonomic annotation and reference sequence data for classified OTUs. The class indirectly extends the DataFrame class with a slot with a subset of the reference database sequences and phylogenetic tree for taxonomically classified OTUs, along with an additional slot for metadata including information on the database source.

Usage

mgFeatures(taxa = data.frame(), tree = NULL, seq = NULL, metadata)

Arguments

taxa	a DataFrame-class or object that can be coerced into a DataFrame
tree	a phylo-class object with phylogenetic tree
seq	DNAStringSet-object with feature sequences
metadata	a list

Value

mgFeature class object

mgFeatures-class object

Examples

data(mock_mgF)
mgFeatures(taxa = data.frame(), metadata = list())

metagenomeFeatures documentation built on Nov. 8, 2020, 5:18 p.m.