CS102B R for Biologists, Level 2

From Bioinformatics.Org Wiki

1 Objective
2 Course outline
3 Course schedule
4 Registration
5 Tuition & discounts
6 Logistics
7 Certification
8 Additional information
9 See also

Objective

Taught in the context of biological research, this course helps biologists understand the data analysis and visualization language R. It is a continuation of CS101B R for Biologists, Level 1 and covers advanced topics and projects.

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Course outline

Day 1: Review of basic R commands for loading, manipulating and visualizing data
- How to create, manage and visualize data in R objects – vectors, matrices, data frames, lists
- Good programming practices
- Specials notes, shortcuts, and basic commands that you may have forgotten
- Project: create a function that will compute the t-statistic, fold change, difference and p-value for all genes, and filter the data to keep the up- or down-regulated genes.
Day 2: Case studies in linear regression, t-test, anova
Day 3: Advanced graphics with par()
Day 4: Bioconductor objects and algorithms, and getting differentially regulated genes from Affymetrix CEL files
- More case studies
Day 5: Project: use limmaGUI or affylmGUI datasets to perform an analysis.

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Course schedule

This course has been offered several times. Access to completed courses is available to enrolled students only, because of privacy and confidentiality issues. If you are interested in an upcoming course, register using instructions below.

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Registration

Registration comprises of two steps. First, create an online account to access the educational section of our website. Second, register for this course by making a payment using either the online registration form (click on the scheduled course above; use this form only for credit card payments via secured PayPal), or by sending in the mail-in registration form (~150 kB PDF, use this form if paying by US checks, credit card or corporate purchase order). Please check the tuition rates and discounts below.

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.

Registration deadline: When full

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Tuition & discounts

The fee for this course is $695 USD (commercial and government)

Discounted rates are available, as follows:

Academic and non-profit research organizations, $464
Students paying for themselves (not getting reimbursement) and unemployed individuals (verification required), please inquire.
Professional members get an additional 20% discount
Limited scholarships may also be available for those in low-income economies.

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Logistics

Online courses are offered via online meeting system. Access information will be provided prior to the start of the course. 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.

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. A microphone and webcam is not required for this course. The necessary software, lecture notes and exercises will be provided.

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Certification

This course is certified by the Bioinformatics Organization, Inc., the largest international affiliation in the field, and it will count as 5 "Continuing Scientific Education" (CSE) credits (one credit per contact hour) within the Organization. Students completing the course will receive a certificate attesting to that.

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