Informatics on High Throughput Sequencing Data

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Course Objectives

With the introduction of high-throughput sequencing platforms, it is becoming feasible to consider sequencing approaches to address many research projects. However, knowing how to manage and interpret the large volume of sequence data resulting from such technologies is less clear. The CBW has developed a popular 2-day course covering the bioinformatics tools available for managing and interpreting high-throughput sequencing data, where the focus is on Illumina reads although the information is applicable to all sequencer reads.

Beginning with an understanding of the workflow involved to move from platform images to sequence generation, participants will gain practical experience and skills to be able to:

  • Assess sequence quality
  • Map sequence data onto a reference genome
  • Perform de novo assembly tasks
  • Quantify sequence data
  • Integrate biological context with sequence information

Target Audience

This workshop is intended for graduate students, post-doctoral fellows, clinical fellows and investigators involved in analyzing data from HT sequencing platforms.

Prerequisites: UNIX familiarity is required. Familiarity can be gained through online activities. You should be familiar with these UNIX concepts (tutorial 1-3) [].

You will also require your own laptop computer. Minimum requirements: 1024x768 screen resolution, 1.5GHz CPU, 2GB RAM, 10GB free disk space, recent versions of Windows, Mac OS X or Linux (Most computers purchased in the past 3-4 years likely meet these requirements). If you do not have access to your own computer, you may loan one from the CBW. Please contact for more information.

Pre-work and pre-readings can be found at

Course Material