filterNAs: Filter Unassigned Taxa

In microresearcher/MicroVis: Microbiome Analysis and Visualization

Filter Unassigned Taxa

Description

Filter out taxa that are unassigned at certain ranks

Usage

filterNAs(dataset = NULL, keepNAs = F, ranks = NULL, temp = F, silent = F)

Arguments

dataset	MicroVis dataset (mvdata object)
keepNAs	Logical telling whether or not to keep taxa that aren't assigned at the ranks specified
ranks	Any taxa that have an unknown assignment at this/these rank(s) will be filtered out.
temp	If set to TRUE, it tells processDataset() to NOT update the active dataset.
silent	Argument that is ultimately passed onto runSampleFilter(), runNormalization(), and runFeatureFilter(), telling them not to output any messages.

Value

MicroVis dataset (mvdata object) with an updated list of taxa to be removed because they were unassigned at specified ranks

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