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Sequence Analysis Bootcamp

Online Spring 2020 (Class dates: April 2 (preliminary), April 9 and April 16, 23, and April 30 and May 7)

Classes will be held via ZOOM, Thursdays from 9:00 AM -12:00 PM in the AS8-2072

Instructors: Manuel Garber, Alper Kucukural and Onur Yukselen

Syllabus:

This is a series of lectures on Unix, MGHPC cluster, R language and bioinformatics tools for molecular biologists. The main goal is to introduce the audience to the basics of bioinformatics with a focus on deep sequencing data analysis using RNA-Seq as an example. No prior computer or programming skills are required to follow the lectures.

This bootcamp starts with a quick introduction to the Unix environment. Next, genomic file formats will be discussed. There will also be some case studies on genomic data. Then usage of Galaxy, a graphical user interface for bioinformatics tools, will be demonstrated. This is followed by the basics of RNA-Seq data analysis and visualizing RNA-Seq data. The last part of this bootcamp is on statistical analysis. A brief introduction to R programming language is followed by statistical tools and methods for RNA-Seq data analysis.

Sessions mix theory and practice by introducing concepts then using real datasets in hands-on exercises.