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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


Download the module slides (pdf)