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Metagenomics Fundamentals

Explore microbial community analysis through shotgun metagenomics and 16S rRNA sequencing. Learn to profile microbial diversity, abundance, and functional potential from environmental samples.

Metagenomics Fundamentals

Syllabus

Foundations3 lessons
  1. What Metagenomics and the Microbiome Are11 min
  2. Amplicon (16S rRNA) vs Shotgun Metagenomics11 min
  3. Study Design, Sampling, and DNA Extraction11 min
From reads to features5 lessons
  1. Sequencing Reads and Quality Control11 min
  2. OTUs vs ASVs: Denoising with DADA211 min
  3. Taxonomic Profiling of Amplicons in QIIME 211 min
  4. Shotgun Taxonomic Profiling with Kraken2 and Bracken12 min
  5. Building the Feature/Abundance Table12 min
Community analysis3 lessons
  1. Alpha Diversity: Richness and Shannon11 min
  2. Beta Diversity, UniFrac, and Ordination12 min
  3. Functional Profiling: HUMAnN and PICRUSt211 min
Wrap-up2 lessons
  1. Interpreting Community Composition11 min
  2. Wrap-Up and Where to Go Next12 min