CS102A Perl for Biologists, Level 2

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Contents

Objective

Taught in the context of biological research, this course shows biologists how to use the scripting language Perl to automate certain tasks. It is a continuation of CS101A Perl for Biologists, Level 1 and covers advanced topics and projects.

Course outline

DAY 1

    Perl basics (a quick review):

    Case study: Automating BLAST

    Case study: Gene expression analysis

DAY 2

    Creating and using modules, namespaces and packages

    References and object-oriented programming

DAY 3

    The Perl DBI and DBD for the MySQL DBMS

    Using BioPerl for sequence analysis

DAY 4

    Project: Microarray database with sequence information

DAY 5

    Project discussions

Logistics

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Locale: This course is offered on the ASAP online meeting system. Access information will be provided prior to the start of the course.

Dates & times: Please see the course schedule below for the next time that this course will run. Each lecture will last 45 to 90 minutes, depending on the topics covered. For those who cannot attend the lectures at those times, the lectures will be recorded and placed on the course website as Flash videos (resolution reduced by 30%) each day, within one day. Students will also be able to communicate with the instructor and other students via the course forums. Lecture attendance is therefore not required.

For an additional USD $49, students who attend this course may order data discs containing full-resolution lecture videos and extra copies of the slides, scripts and data files.

Technical Requirements: Since this will be an interactive, hands-on workshop, all attendees will need a computer with a broadband Internet connection (1 Mbps or faster is strongly recommended for those watching the live lecture), a sound card with speakers, a modern Web browser, and the Adobe Flash plugin. Please check the specific system requirements for your computer. A microphone and webcam is not required for this course. The necessary software, lecture notes and exercises will be provided.

Prerequisites (Entry Conditions)

Students should have taken CS101A Perl for Biologists, Level 1 or have equivalent experience.

Certification

This course is certified by the Bioinformatics Organization, Inc., the largest international affiliation in the field, and it will count as 8 "Continuing Scientific Education" (CSE) credits (one credit per contact hour) within the Organization. Students completing the course will receive a certificate attesting to that.

Course schedule

Registration

Tuition discounts

Tuition (all prices USD):

Base tuition If taken with a non-CS101
course at base tuition
If taken with another CS101
course at base tuition
Commercial $595 $476 $298
Non-profit/academic $397 $318 $199

For full-time students and the unemployed, please inquire about an additional discount (verification required).

Registration deadline: When full

Please create an account before registering, if you haven't already done so. The educational website at Bioinformatics.Org requires a separate username and password.

Available payment methods:

  1. Online registration form (account required; please use the link in the course schedule above)
    Use this form only for credit card payments (via secured PayPal).
  2. Mail-in registration form (~150 kB PDF)
    Use this form if paying by check (US bank accounts only), credit card or corporate purchase order.

Additional information

If you have any questions, please send a message to J.W. Bizzaro (login required) or call +1 508 890 8600.

ASAP is a trademark of Convoq, Inc.
Other names are trademarks of their respective owners.

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