limmaTwoGroups function

Wrapper around limma for the comparison of two groups

limmaTwoGroups(object, group)

Arguments

• object: object of class ExpressionSet
• group: string indicating the variable defining the two groups to be compared

Returns

topTable output for the second (i.e. slope) coefficient of the linear model.

Details

Basically, the wrapper combines the lmFit, eBayes and topTable steps

References

Smyth, G. K. (2004). Linear models and empirical Bayes methods for assessing differential expression in microarray experiments. Statistical Applications in Genetics and Molecular Biology, Vol. 3, No. 1, Article 3.

http://www.bepress.com/sagmb/vol3/iss1/art3

Author(s)

Tobias Verbeke