Preface and System Overview

Published

Jun 2026

The CDI Microbiome System is an end-to-end workflow for moving from microbial community data to reproducible biological interpretation.

System map

Code

flowchart TD
  A[Biological Question] --> B[Study Design and Metadata]
  B --> C[Sampling and Sequencing]
  C --> D[Data Acquisition]
  D --> E[Quality Control]
  E --> F[Feature Generation]
  F --> G[Taxonomic Profiling]
  G --> H[Diversity Analysis]
  H --> I[Functional Profiling]
  I --> J[Differential Analysis]
  J --> K[Biological Interpretation]
  K --> L[Reproducible Reporting]
  L --> M[CDI Workforce Readiness]

flowchart TD
  A[Biological Question] --> B[Study Design and Metadata]
  B --> C[Sampling and Sequencing]
  C --> D[Data Acquisition]
  D --> E[Quality Control]
  E --> F[Feature Generation]
  F --> G[Taxonomic Profiling]
  G --> H[Diversity Analysis]
  H --> I[Functional Profiling]
  I --> J[Differential Analysis]
  J --> K[Biological Interpretation]
  K --> L[Reproducible Reporting]
  L --> M[CDI Workforce Readiness]