BIOL701 Microbiomes: Data to Insight

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Description: Course materials for BIOL701, Spring 2020, U. Kansas

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Components

  • Introduction

    Introduction to terminology, molecular methods, and sequencing.

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  • Unix and Cluster Computing

    Overview of unix in preparation for use of the cluster; overview of using a bash based cluster

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  • Bioinformatics and QIIME2

    Bioinformatics and QIIME2 introduction, alongside tutorial based from QIIME2 Moving Pictures data.

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  • Phylogenetic Trees

    Overview of phylogenetic tree construction; examples using RAxML on a cluster

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  • R and Phyloseq

    Introduction to R and phyloseq using data generated using the Moving Pictures tutorial from QIIME2

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  • Data QC, Data Exploration and Statistics

    Overview of quality control, normalization, data exploration; univariate and multivariate statistics commonly used with microbiome data

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  • Tutorials and Useful References

    Helpful tutorials and resources on most topics covered in this course

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  • References

    Useful literature references across all topics covered in this class

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