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  3. Differential Expression Analysis with limma in R

Exercise

Create an ExpressionSet object

Managing 3 different data sets for one experiment is tedious and error-prone, especially if you need to perform any filtering. Combine the 3 data sets from the leukemia experiment into a unified object using the Bioconductor class ExpressionSet.

Instructions

100 XP

The expression matrix (x), feature data (f), and phenotype data (p) are loaded in your workspace.

  • Create a new ExpressionSet object using the function ExpressionSet.

  • Pass the expression matrix to the assayData argument.

  • Pass the phenotype data frame to the phenoData argument.

  • Pass the feature data frame to the featureData argument.