PerformMetagenomeSeqAnal: Main function to perform metagenome seq analysis

In xia-lab/MicrobiomeAnalystR: MicrobiomeAnalystR - A comprehensive R package for statistical, visual, and functional analysis of the microbiome.

Main function to perform metagenome seq analysis

Description

This functions performs metagenome seq analysis on the microbiome data.

Usage

PerformMetagenomeSeqAnal(mbSetObj, variable, p.lvl, shotgunid, taxrank, model)

Arguments

mbSetObj	Input the name of the mbSetObj.
variable	Character, input the name of the experimental factor.
p.lvl	Numeric, input the adjusted p-value cutoff.
shotgunid	Only valid for SDP module, set to "NA".
taxrank	Character, input the taxonomic level to perform univariate analysis.
model	Character, input the name of the statistical model to fit the data. Use "zigfit" for zero-inflated Gaussian fit and "ffm" for the fitFeatureModel.
datatype	Character, input whether the data is marker gene data ("16S") or metagenomic data ("metageno").

Author(s)

Jeff Xia [e-mail] McGill University, Canada License: GNU GPL (>= 2)

xia-lab/MicrobiomeAnalystR documentation built on April 17, 2024, 7:45 p.m.