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jfy133 committed Sep 18, 2024
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Expand Up @@ -6,11 +6,11 @@ The techniques in this section of the book can be used in a variety of stages of

## [Taxonomic Profiling](taxonomic-profiling.qmd)

One of the first questions when looking at metagenomics data is often _Who is there?_. But this question is actually not specific to (ancient) metagenomics, but in fact is a broader ecological question that has first been applied to macro ecological systems.

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_TBC_

In this chapter, we will show you how to answer this question at the microbial scale using methods applied to ancient metagenomics data.
We will talk about taxonomic profiling, ecological diversity metrics, how to compare different samples and see how they relate through their community composition.
We will learn about taxonomic profiler tools, ways to analyze and visualize taxonomic profiles, libraries to manipulate taxonomic profile tables, and libraries to compute and visualize ecological diversity metrics.

## [_De novo_ Assembly](denovo-assembly.qmd)

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