findSigFisher: Run Fisher Test on Features

In microresearcher/MicroVis: Microbiome Analysis and Visualization

Run Fisher Test on Features

Description

Run Fisher test on features that are labeled for filtering. This test is run on presence-absence data and not abundance data.

Usage

findSigFisher(dataset, fts, lowabun_thresh = 0, silent = F)

Arguments

dataset	MicroVis dataset (mvdata object)
fts	List of features to test.
lowabun_thresh	Abundance value above which a feature is considered to be present in a given sample.
silent	Argument that is ultimately passed onto runSampleFilter(), runNormalization(), and runFeatureFilter(), telling them not to output any messages.

Value

List of features that had a statistically significant Fisher test when performed across the subsetted groups of the active factor.

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