{ "cells": [ { "cell_type": "markdown", "metadata": {}, "source": [ "# [3]() Applications [edit]" ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "**Table of Contents**\n", "0. [Studying Microbial Diversity](1)\n", " 0. [Getting started: the feature table](1#1)\n", " 0. [Terminology](1#2)\n", " 0. [Measuring alpha diversity](1#3)\n", " 0. [Observed species (or Observed OTUs)](1#3.1)\n", " 0. [A limitation of OTU counting](1#3.1.1)\n", " 0. [Phylogenetic Diversity (PD)](1#3.2)\n", " 0. [Even sampling](1#3.3)\n", " 0. [Measuring beta diversity](1#4)\n", " 0. [Distance metrics](1#4.1)\n", " 0. [Bray-Curtis](1#4.1.1)\n", " 0. [Unweighted UniFrac](1#4.1.2)\n", " 0. [Even sampling](1#4.1.3)\n", " 0. [Interpreting distance matrices](1#4.2)\n", " 0. [Distribution plots and comparisons](1#4.2.1)\n", " 0. [Hierarchical clustering](1#4.2.2)\n", " 0. [Ordination](1#4.3)\n", " 0. [Polar ordination](1#4.3.1)\n", " 0. [Determining the most important axes in polar ordination](1#4.3.2)\n", " 0. [Interpreting ordination plots](1#4.3.3)\n", " 0. [Tools for using ordination in practice: scikit-bio, pandas, and matplotlib](1#5)\n", " 0. [PCoA versus PCA: what's the difference?](1#6)\n", " 0. [Are two different analysis approaches giving me the same result?](1#7)\n", " 0. [Procrustes analysis](1#7.1)\n", " 0. [Where to go from here](1#8)\n", " 0. [Acknowledgements](1#9)" ] } ], "metadata": {}, "nbformat": 4, "nbformat_minor": 2 }