Introduction

Orchestrating Microbiome Analysis with Bioconductor

Orchestrating Microbiome Analysis with Bioconductor

• Introduces microbiome analysis framework
• For participants with sufficient programming skills

Schedule

Day 1 — Monday: Introduction to Bioconductor & data containers

Day 2 — Tuesday: Data wrangling

Day 3 — Thursday: Diversity

Day 4 — Friday: Differential abundance & advanced topics

Practicalities

• Each topic: short lecture + demonstration
• Majority of time: hands-on practice
• Materials follow the OMA online book

Questions

• What are r BiocStyle::Biocpkg("mia") and OMA?

• How microbiome data science is conducted in r BiocStyle::Biocpkg("SummarizedExperiment") ecosystem?

• What benefits this new ecosystem have compared to previous approaches?

Objectives

• Analyze microbiome data using the r BiocStyle::Biocpkg("SummarizedExperiment") ecosystem

• Create & interpret visualizations

• Explore documentation & tools via the OMA book

References