Case Study: Variant Discovery and Genotyping

VU Course ID: 00193
Curriculum: 2 weeks
Fee: FREE
Textbooks: None
Prerequisites: None
Instructor: Rafael Irizarry, Shannan Ho Sui, Radhika Khetani, Oliver Hofmann, Meeta Mistry, Peter Kraft, Constance Chen
Provider: Harvard University (via edX)
Recordable: This course can be recorded in your VU transcript.

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starts Class starts 27 April 2015

Course Description

In this series, we will explore the data analysis of an experimental protocol in-depth, using various open source software, including R and Bioconductor. You will learn how to start with raw data and perform the standard processing and normalization steps to get to the point where you can investigate relevant biological questions. Throughout the case studies, we will make use of exploratory plots to provide a general overview of the shape of the data and the result of the experiment. This particular course will teach you the basic steps involved in finding genetic variants in DNA re-sequencing datasets, from read alignment to calling and aggregating variant data across many samples. This class was supported in part by an NIH grant.

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