Instructors: Christina Warinner
Abstract: This lecture introduces you to the basics of metagenomics, with an emphasis on tools and approaches that are used to study ancient metagenomes. We begin by covering the basic terminology used in metagenomics and microbiome research and discuss how the field has changed over time. We examine the species concept for microbes and challenges that arise in classifying microbial species with respect to taxonomy and phylogeny. We then proceed to taxonomic profiling and discuss the pros and cons of different taxonomic profilers.
Afterwards, we explain how to estimate preservation in ancient metagenomic samples and how to clean up your datasets and remove contaminants. Finally, we discuss strategies for exploring and comparing the ecological diversity in your samples, including different strategies for data normalization, distance calculation, and ordination.
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