Learning R / Bioconductor for Sequence Analysis

San Francisco, USA

2015-02-02 ~ 2015-02-03

Instructors

• Martin Morgan
• Hervé Pagès

Description

This course is directed at beginning and intermediate users who would like an introduction to the analysis and comprehension of high-throughput sequence data using R and Bioconductor. Day 1 focuses on learning essential background: an introduction to the R programming language; central concepts for effective use of Bioconductor software; and an overview of high-throughput sequence analysis work flows. The morning of Day 2 emphasizes use of Bioconductor for specific tasks, and in particular takes detailed look at RNA-seq differential expression work flow. The afternoon of Day 2 transitions to understanding effective approaches for managing larger challenges: strategies for working with large data, writing re-usable functions, developing reproducible reports and work flows, and visualizing results. The course combines lectures with extensive hands-on practicals; participants are required to bring a laptop with wireless internet access and a modern version of the Chrome or Safari web browser.

Materials

Course Package for use with R-3.2.x and Bioconductor 3.1.

To launch an Amazon Machine Image (AMI) for this course:

• Create an Amazon Web Services (AWS) Account if you don’t already have one.
• Start the instance ami-ded79ab6; See the documentation for this. Make sure your security group has port 80 accessible.
• Paste the Public DNS name of your instance into a web browser.
• Log in to RStudio with username ubuntu and password bioc .
• Be sure and terminate your instance when you are done using it, in order to avoid excessive charges.