Waste Not, Want Not Supplemental Files

This repo hosts the supplemental source/output files corresponding to Protocol 1 of the following article.

McMurdie and Holmes (2014) Waste Not, Want Not: Why Rarefying Microbiome Data is Inadmissible. PLoS Computational Biology

(in press)

• Source Code Index
• Minimal Rarefy Example
• Simulations Design
• Dispersion Survey
• Cluster Accuracy Simulation
• Differential Abundance Simulation

If you find this supplemental useful, or the extensions linked below, please make sure to cite the above article.

Phyloseq Extensions

For brief reproducible examples of related extensions for the phyloseq package, see the phyloseq extensions front page.