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Discovering Patterns in the Microbiome
Copyright Dan Knights, 2016
University of Minnesota
http://www.knightslab.org

Table of Contents

The Github repo for this code is https://github.com/danknights/mice8992-2016

Installing QIIME

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First steps with QIIME

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Picking OTUs (guerrero negro)

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Loading QIIME data into R

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Beta diversity (guerrero negro)

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Statistical analysis (Global Gut)

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Ordination (Guerrero Negro)

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Constrained ordination (Guerrero Negro)

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Evaluating clusters with prediction strength (Global Gut)

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SourceTracker

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SparCC

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HUMAnN2

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PICRUSt

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