README.md

KunDH-2024-CRM-MSM_metagenomics

Computational workflows for reproducing analysis in the study of Huang et al., 2024

Table of contents

1. Setup
2. General usage
3. Detailed tutorials
   • Reads quality inspection with cumulative distribution function
   • Alpha diversity analysis
   • Beta diversity analysis
   • Co-presence analysis
   • ComplexHeatmap plotting
   • Make mosaic plot
   • Machine learning analysis
   • Deviation plot, UpSet plot, Lollipop plot