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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.
Unix and Cluster Computing
Overview of unix in preparation for use of the cluster; overview of using a bash based cluster
Bioinformatics and QIIME2
Bioinformatics and QIIME2 introduction, alongside tutorial based from QIIME2 Moving Pictures data.
Phylogenetic Trees
Overview of phylogenetic tree construction; examples using RAxML on a cluster
R and Phyloseq
Introduction to R and phyloseq using data generated using the Moving Pictures tutorial from QIIME2
Data QC, Data Exploration and Statistics
Overview of quality control, normalization, data exploration; univariate and multivariate statistics commonly used with microbiome data
Tutorials and Useful References
Helpful tutorials and resources on most topics covered in this course
References
Useful literature references across all topics covered in this class
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