[Next-Generation Sequencing Book]
  • [Photo] Brian Fristensky • June 1, 2006
    Genome Canada's APPLIED COMPUTATIONAL GENOMICS COURSE

    LOCALE: University of Manitoba, Winnipeg, Manitoba, Canada
    DATES: September 8-14, 2006

    (International attendees welcome!)

    Bioinformatics in the post-genomic era requires the analysis of large and diverse datasets using automated tools. While many Web-based tools are available to the lab researcher, the Web is awkward for tasks beyond single-sequence annotation. Researchers need to become productive in a server-based Unix environment with its wealth of scripting and automation tools. Even at an entry-level, this can be an intimidating endeavor. The Genome Canada Bioinformatics Platform is empowering researchers by teaching a hands-on course, with lectures and tutorials presented by a panel of experts. The course uses tools and services available through the Genome Canada Bioinformatics Platform. Most tools used are open-source, and can be freely downloaded for use at one's home institution.

    Topics include (tentative):

    Becoming a power user
    • Basic Unix skills on a network-centric desktop
    • BIRCH: Working with sequence datasets on a comprehensive bioinformatics system
    • BIRCH: Creating your own in-house bioinformatics system
    Creating automated data pipelines
    • Perl scripting: Quick automation of data analysis tasks and utilization of web services
    • BioPerl; Object-oriented Perl; Data warehousing - the SeqHound API
    • BioMOBY: a transparent software layer that automatically finds and uses web services
    High throughput genome annotation
    • TimeLogic Decypher and Paracel Gene Matcher
    • MAGPIE, BLUEJAY : Automated genome analysis, annotation and visualization
    • OSPREY: High-throughput oligonucleotide design
    Canadian Bioinformatics Help Desk

    Secure use of remote bioinformatics systems:
    • command line: ssh, sftp, scp, tar, gzip
    • remote desktop: VNC
    For more information about this workshop go to:
    http://www.gcbioinformatics.ca/training

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