Computational Methods for Massively Parallel Sequencing, Januari 2012
This course will provide an introduction to a wide range of analytical techniques for massively parallel sequencing. We will pair lectures on the theory of analysis algorithms with practical computational exercises demonstrating the use of common tools for analyzing data from each of several common sequencing study designs.
Topics covered will include:
- alignment of reads to a reference
- variation detection
- RNA-Seq alignment and expression analysis
- ChIP-Seq alignment and enrichment analysis
- de novo assembly of both genome and transcriptome data
Analysis techniques covered will focus mostly on data from the Illumina and SOLiD platforms, but we will discuss other sequencing platforms and the advantages and challenges to using their data.