filterLowTotAbun: Filter Low Total Abundance Features

In microresearcher/MicroVis: Microbiome Analysis and Visualization

Filter Low Total Abundance Features

Description

Filter Low Total Abundance Features

Usage

filterLowTotAbun(dataset = NULL, top = NULL, min_totabun = NULL, silent = F)

Arguments

dataset	MicroVis dataset (mvdata object)
top	(Optional) Top n number of features to be kept based on total abundance. Specifying a value for this will override the min_totabun value.
min_totabun	(Optional) (Default) Total abundance threshold. Features with total abundance lower than this threshold will be filtered out.
silent	Argument that is ultimately passed onto runSampleFilter(), runNormalization(), and runFeatureFilter(), telling them not to output any messages.

Value

MicroVis dataset (mvdata object) with updated low total abundance filtering parameters.

microresearcher/MicroVis documentation built on Feb. 8, 2024, 10:59 a.m.