Explore the QIIME 2 Cancer Microbiome Intervention tutorial through a comprehensive video series that guides you through using QIIME 2's Galaxy interface, Python 3 API, and command line interface. Learn about semantic types, data formats, and sample metadata before diving into importing and demultiplexing sequence data. Master denoising techniques, taxonomic assignment, and phylogenetic reconstruction. Discover how to compute and visualize alpha and beta diversity metrics, perform longitudinal microbiome analyses, and conduct sample classification. This 12-hour tutorial, released weekly, provides hands-on experience with real cancer microbiome data, equipping you with essential skills for microbiome research and analysis.
Overview
Syllabus
Introduction to the QIIME 2 Cancer Microbiome Intervention video tutorial.
An introduction to QIIME 2.
Running QIIME 2 inside Galaxy (alpha release version).
QIIME 2 Galaxy introduction.
Semantic types and data formats in QIIME 2.
Introduction to the Cancer Microbiome Intervention Tutorial data.
Sample Metadata.
Exploring the tutorial metadata.
Importing and demultiplexing.
16S Lab protocols.
Importing demultiplexed sequence data.
Denoising.
Denoising sequence data with DADA2.
Filtering feature tables.
Taxonomic assignment.
Taxonomic annotation of observed sequences.
Phylogenetic reconstruction.
Phylogenetic tree construction.
Rarefaction.
Identifying an even sampling depth.
Computing diversity metrics.
Alpha diversity metrics.
Alpha diversity visualizations.
Beta diversity metrics.
Beta diversity visualizations.
Longitudinal analyses.
Longitudinal microbiome analysis.
Sample classification.
Taught by
QIIME 2
