CMSB Course on

Array Data Analysis Using R & Bioconductor

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Date: 29^th, 30^th November and 1^st December 2004

Course leaders:  Renée X. de Menezes (LUMC/EMC) and Peter-Bram 't Hoen (LUMC)

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Program:

• Introduction to R & Bioconductor
• R & Bioconductor Practical
• Quality Control
• Quality Control Practical, Results
• Normalization  
• Normalization Practical
• Finding Differentially Expressed Genes
• Statistical Testing
  • Comparing Two Groups
  • Comparing Two Groups of Arrays
  • Practical 1
  • Practical 2
• Multiple Testing
• Multiple Testing Practical
• Regression Analysis
  • Statistical Testing - Review
  • Statistical Testing - Array Data
  • Extensions of Regression Models
  • Regression Models Practical 1
  • Regression Models Practical 2
• Experimental Design
• Experimental Design Practical
• Sample size determination
• Sample size determination Practical

Instructions exercises in R

All exercises were constructed for R2.0.1 and bioconductor release 1.5. Using other R or Bioconductor versions may cause problems in running the scripts. The authors do not take responsibility for any errors in the provided R codes.

 

Data: The zip file containing all the data sets for the exercises can be found here: Data Sets.

 

Renée de Menezes, r.x.menezes@lumc.nl

Peter-Bram ’t Hoen, p.a.c.hoen@lumc.nl

 

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