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in the last module we focused on image analysis as the method used for pre-processing the underlying raw data from array-based assays such as custom spotted arrays and appymetrics Gene chips this module focuses on alignment as the method used for pre-processing the underlying raw data from sequencing assays specifically this module includes an overview of what alignment and sequencing experiments is and why it is needed a description of the raw data files used in alignment a historical overview of early and more modern sequence alignment procedures for protein and DNA sequences and these are important as they lay the foundation for the important topic of alignment for rna-seq data all methods including DNA seek chip seek rna-seq and copy number variant C or cnv seek are dependent on correct alignment of the sequence to a reference genome for rna-seq chip seek and cnv seek the first step is to align sequences to a reference genome or more explicitly to a reference set of transcripts the
