phyloseq_filter_taxa_rel_abund: Remove taxa with small mean relative abundance.

In vmikk/metagMisc: Miscellaneous functions for metagenomic analysis

Remove taxa with small mean relative abundance.

Description

Remove taxa with small mean relative abundance.

Usage

phyloseq_filter_taxa_rel_abund(physeq, frac = 1e-04)

Arguments

physeq	A phyloseq-class object
frac	The minimum cutoff for the relative OTU abundance

Details

This function searches for taxa with small mean relative abundance and removes them. Result will be returned with original counts in the abundance table.

Value

Phyloseq object with a subset of taxa.

Examples

data("esophagus")
phyloseq_filter_taxa_rel_abund(esophagus, frac = 0.01)
phyloseq_filter_taxa_rel_abund(esophagus, frac = 0.1)

vmikk/metagMisc documentation built on Feb. 14, 2024, 2:29 a.m.