Microarray Analysis using R and Bioconductor - Maastricht, Netherlands

Date:

 Tuesday 28 - Thursday 30 January 2014

Venue: 

Maastricht University - Minderbroedersberg 4-6, 6211 LK,  Maastricht, Netherlands

Application opens: 

Tuesday 01 October 2013

Application deadline: 

Monday 23 December 2013

Participation: 

First come, first served

Contact: 

Holly Foster

Registration closed

Course Overview

This course will provide an introduction to microarray data analysis and training in how to perform simple analyses using R/Bioconductor. All sessions are a combination of lectures and hands-on.

 

Audience

This course is aimed at researchers and scientists (PhD students, post-doc, staff scientist) who will benefit from an introduction to microarray data analysis and training in how to perform simple analyses using R/Bioconductor. Prerequisites are a life science degree or equivalent experience, basic understanding of microarray techniques, and a basic understanding of biostatistics. No prior knowledge of R or Bioconductor is assumed

Learning outcomes

After this course you will be able to:

  • Use the correct R syntax
  • Manipulate objects in R
  • Discuss why quality control is important
  • Use bioinformatics tools to run a QC workflow and data exploration methods

Programme

*Draft Programme - subject to change*

Time Topic Trainer
Day 1 - 28 January 2014
08:30 - 09:00 Registration  
09:00 - 09:45  Course introduction and expectations  
09:45 - 10:45  General Introduction to R – what is R, console and Rstudio   
10:45 - 11:15  Break   
11:15 - 12:45 Introduction to R – handling the environment and data types   
12:45 - 13:45  Lunch   
13:45 - 15:15  Introduction to R – data input/output and basic scripting   
15:15 - 15:45  Break   
15:45 - 17:30  Plotting – R-packages and the Bioconductor project   
  Conference dinner (venue & time to be confirmed)   
Day 2 - 29 January 2014
09:00 - 09:45  Introduction to the diXa project   
09:45 - 10:15  Take home lessons day 1   
10:15 - 11:15  Overview of microarray/ Affymetrix technology and terminology   
11:15 –11:45  Break   
11:45 –12:30  Quality Control and preprocessing of Affymetrix arrays introduction   
12:30 - 13:30  lunch   
13:30 - 14:00  Getting started with metadata   
14:00 - 15:00  Quality control and preprocessing of Affymetrix arrays – Hand-on part 1   
15:00 - 15:30  Break   
15:30 - 17:30  Quality control and preprocessing of Affymetrix arrays – Hand-on part 2   
17:30  End of day 2   
Day 3 - 30 January 2014 
09:00 - 09:30  Take home lessons day 2   
09:30 - 10:15  Data exploration introduction   
10:15 - 10:45  Break   
10:45 - 12:00  Data exploration – Hands-on part 1   
12:00 - 13:00  Lunch   
13:00 - 15:00  Data exploration – Hands-on part 2   
15:00 - 16:00  Course conclusion  and participant feedback  
16:00  End of course   
Maastricht University
Minderbroedersberg 4-6 6211 LK Maastricht Netherlands
/training/events/0000/files/content.ebi.ac.uk/venues/netherlands_maastricht_university.jpg

In association with

How to apply

Registration is now closed for this event.

Application deadline

23 December 2013

Registration closed

Organisers

Lee Larcombe - Amphimatic