Welcome to qdiv’s documentation!

qdiv is a Python toolkit for microbial diversity analysis, built around the robust and intuitive Hill number framework.

Introduction

• What is qdiv?
  • Key Features
• Installation instructions
• Data types

Example usage

• Load and save data
  • Load and create a MicrobiomeData object
  • Save files
  • Load other types of files
• Data management
  • Finding consensus ASVs
  • Subsetting
  • Rarefy
• Diversity
  • Alpha diversity
  • Beta diversity
• Plot
  • Heatmap
  • Alpha diversity profiles
  • Beta diversity
• Null models
• Other statistics
  • Mantel test
  • PERMANOVA
  • Bootstrap summaries of dissimilarity matrices
• References

Core Functions

• qdiv
  • qdiv package