Function reference

All functions

annotateFactors() annotateFullDataset() formatMetadata()

Format sample data files as needed for sociodemographic and smoking analyses.

get_edgeR_results() get_edger_results_all_levels() edger_list_to_data.frame() get_all_edgeR_models()

User friendly interface to edgeR for microbiome data

loadQiimeData()

Import

plot_abundance() plot_abundance_by()

Area and bar plots of sample-level relative abundance at specified taxonomic levels

plot_alpha_by() plot_beta_by()

Alpha and beta diversity plots stratified by sample variables

plot_edgeR()

Dot plots based on edgeR results for microbiome data

prettytable_autoindent()

Create an auto-indented table based on tableone::CreateTableOne.