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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)