This 2-3 hour module was presented as part of QB-826 in August 2015. It covers pre-processing QC, short-read mapping alignment, visualization, and analysis considerations. Hands-on computer lab exercises are included using drosophila as a reference genome and a file of experimentally derived short reads. Tool coverage includes Bowtie, Samtools, IGV, FastQC, and FASTX.
Author: John B. Johnston