This course is being held on Tuesday and Wednesday of next week. Some space is still available. --------------------- OPEN SOURCE BIOINFORMATICS FOR RESEARCHERS RADISSON HOTEL CAMBRIDGE CAMBRIDGE, MA SEPT. 19 & 20, 2006 http://edu.bioinformatics.org/06a (CS101 Introduction to Bioinformatics Programming: Perl I & R I for Biologists) September 19th & 20th, 2006 Radisson Hotel Cambridge <http://www.radisson.com/cambridgema>, 777 Memorial Drive, Cambridge, Massachusetts Poster <http://edu.bioinformatics.org/06a/poster.pdf> (172 KB PDF) DESCRIPTION This is a course on the fundamentals of open-source programming, to help biologists understand how and when to use the right computer tools for solving computational biology problems, whether sequence analysis, gene expression, mass spectrometry, or systems biology. This course is modularized so that researchers can understand two distinct tools: a programming and scripting language such as Perl and a data analysis and visualization language such as R. Armed with knowledge and some hands-on experience with these tools (including add-on modules like BioPerl and Bioconductor), scientists will be able to appreciate and use software better in their organization, and also be able to put research questions in the context of these tools. They will be able to do basic computational tasks themselves and better communicate with their IT group. PREREQUISITES There are no prerequisites for this course other than having a need to learn some of the fundamentals of programming, in case the scientist has any bioinformatic tasks in their day-to-day work. COURSE OUTLINE Day 1: Session 1: 08:00 - 08:30 am: Registration 08:30 - 10:00 am: Installation, Fundamentals of Perl 10:00 - 10:30 am: Exercises - simple Perl programs 10:30 - 10:45 am: BREAK 10:45 - 11:30 am: Perl loops, file i/o, list operations, conditional statements 11:30 - 12:00 pm: Exercises - more Perl programs Session 2: 01:00 - 02:00 pm: Perl syntax - regular expressions, hash functions 02:00 - 03:00 pm: Exercises - manipulate DNA sequence, annotation data 03:00 - 03:15 pm: BREAK 03:15 - 03:30 pm: Additional Perl syntax - subroutines 03:30 - 05:00 pm: Exercises - automate BLAST queries Day 2: 09:00 - 12:00 pm: Basics of R 12:00 - 01:00 pm: LUNCH 01:00 - 04:30 pm: Bioconductor for microarray analysis Breakfast and afternoon tea are provided, but lunch is not. LOGISTICS When: September 19th & 20th, 2006 Where: Radisson Hotel Cambridge <http://www.radisson.com/cambridgema>, 777 Memorial Drive, Cambridge, Massachusetts All attendees are encouraged to bring their own notebook computers, since this will be a hands-on workshop. CDs will be provided to install the necessary software, and lecture notes and exercises will be provided. CERTIFICATION This course is certified by the Bioinformatics Organization, Inc. <http://bioinformatics.org/about/>, the largest international affiliation in the field, and it will count as *16* "Continuing Scientific Education" (CSE) credits (one credit per contact hour) within the Organization. Students completing the course will receive a certificate attesting to that. REGISTRATION Commercial tuition: $600/person Academic tuition: $300/person Registration deadline: September 18th, 2006 or when filled Available payment methods: 1. Online Registration Form <http://edu.bioinformatics.org/course/view.php?id=2> (account required) Use this form only if paying by credit card (via secured PayPal). 2. Mail-in Registration Form <http://edu.bioinformatics.org/download/registration_form.pdf> (158 KB PDF) Use this form for all other methods of payment. You may also go to the course website <http://edu.bioinformatics.org/course/view.php?id=2> and click on "login as a guest" to view the online course materials. Please send questions to <edu at bioinformatics.org>. -- J.W. Bizzaro Bioinformatics Organization, Inc. (Bioinformatics.Org) E-mail: jeff at bioinformatics.org Phone: +1 508 890 8600 --