validatePhloseq: Verify Phyloseq Objects before Running the C3NA Pipeline

In zhouLabNCSU/C3NA: Correlation and Consensus-Based Cross-Taxonomy Network Analysis (C3NA)

Verify Phyloseq Objects before Running the C3NA Pipeline

Description

This validation serve to ensure the data are prepared is ready for the C3NA.

1. Ensure the OTUs/ASVs table, Taxa table and sample data with a diagnosis column present.

2. The user can provide the correct diagnosis column required for the C3NA phenotype data processing.

Usage

validatePhloseq(phyloseqObj = phyloseqObj, diagColName = NA)

Arguments

phyloseqObj	(Required) A phyloseq object.
diagColName	(Optional) Identify the dianogis/phenotype column, and create a 'diagnosis' column the column was named differently.

Value

A phyloseq object

Examples

data(CRC_Phyloseq)
curPhyloseq = validatePhloseq(phyloseqObj = CRC_Phyloseq)

zhouLabNCSU/C3NA documentation built on Oct. 10, 2022, 4:43 a.m.