Genome Canada
APPLIED COMPUTATIONAL GENOMICS COURSE
September 8-14, 2006, University of Manitoba
Winnipeg, Manitoba, Canada
(International attendees welcome!)
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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
o Basic Unix skills on a network-centric desktop
o BIRCH: Working with sequence datasets on a comprehensive bioinformatics
system
o BIRCH: Creating your own in-house bioinformatics system
Creating automated data pipelines
o Perl scripting: Quick automation of data analysis tasks and utilization
of web services
o BioPerl; Object-oriented Perl; Data warehousing - the SeqHound API
o BioMOBY: a transparent software layer that automatically finds and uses
web services
High throughput genome annotation
o TimeLogic Decypher and Paracel Gene Matcher
o MAGPIE, BLUEJAY : Automated genome analysis, annotation and visualization
o OSPREY: High-throughput oligonucleotide design
Canadian Bioinformatics Help Desk
Secure use of remote bioinformatics systems:
o command line: ssh, sftp, scp, tar, gzip
o remote desktop: VNC
For more information about this workshop go to:
http://www.gcbioinformatics.ca/training
