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Microarrays and Normalization; Bioconductor
  • Between array and within array normalization
  • Concordance coefficients and their use in normalization
  • Data cleaning
  • Instructions for the use of Bioconductor to preprocess affydata
  • Microarray experimental setup and quantification of information available from microarray experiments
  • Numerical illustration for 4-6 with the complete set of annotated R-commands
  • Transformation of data
Statistical Inference Procedures in Comparative Experiments
  • Adjustments for Multiple hypotheses testing including false discovery rate
  • Statistical hypothesis testing
  • Moderated t-test and empirical Bayes approach of limma package of bio conductor
  • Numerical illustration for 2-8 with the complete set of annotated R-commands.
  • One way ANOVA
  • Paired t-test
  • Tests for validating assumptions of t-test
  • Two sample t- test
  • Welch test
  • Wilcoxon rank sum test, signed-rank test
  • Multivariate Techniques (Principal component analysis)
  • Clustering (Cluster analysis)

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