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Education: Genome Canada's Applied Computational Genomics Course (ACGC), Sept '06
Submitted by Brian Fristensky; posted on Thursday, June 01, 2006
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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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