plot.differentialTest: differentialTest plot function

In corncob: Count Regression for Correlated Observations with the Beta-Binomial

differentialTest plot function

Description

differentialTest plot function

Usage

## S3 method for class 'differentialTest'
plot(x, level = NULL, data_only = FALSE, ...)

Arguments

x	Object of class differentialTest
level	(Optional). Character vector. Desired taxonomic levels for taxa labels.
data_only	(Optional). Default FALSE. Boolean. If TRUE, only returns data frame.
...	No optional arguments are accepted at this time.

Value

Object of class ggplot. Plot of coefficients from models for significant taxa from differentialTest

Examples

# phyloseq example
data(soil_phylum_small_sample)
data(soil_phylum_small_otu)
da_analysis <- differentialTest(formula = ~ DayAmdmt,
                                phi.formula = ~ DayAmdmt,
                                formula_null = ~ 1,
                                phi.formula_null = ~ DayAmdmt,
                                test = "Wald", boot = FALSE,
                                data = soil_phylum_small_otu,
                                sample_data = soil_phylum_small_sample,
                                fdr_cutoff = 0.05,
                                try_only = 1:5)
plot(da_analysis, level = "Phylum")

corncob documentation built on May 29, 2024, 7:15 a.m.