The approach of Efron et al. (2001) is based on a mixture model
for two subpopulations: genes that are differentially expressed and
those not. The posterior probability for differential
expression is used to obtain a ranking.
The function described below is merely a wrapper for the
z.ebam from the package
S4 method information, see RankingEbam-methods.
An optional vector of gene names.
Further arguments passed to the function
To find a better value for the fudge factor, the function
siggenes) can be used.
An object of class GeneRanking.
P-values are not computed - the statistic is a posterior probabiliy.
Efron, B., Tibshirani, R., Storey, J.D., Tusher, V. (2001).
Empirical Bayes Analysis of a Microarray Experiment. Journal of the American Statistical Association, 96, 1151-1160.
Schwender, H., Krause, A. and Ickstadt, K. (2003).
Comparison of the Empirical Bayes and the Significance Analysis of Microarrays. Techical Report, University of Dortmund.
RepeatRanking, RankingTstat, RankingFC, RankingWelchT, RankingWilcoxon, RankingBaldiLong, RankingFoxDimmic, RankingLimma, RankingWilcEbam, RankingSam, RankingShrinkageT, RankingSoftthresholdT, RankingPermutation
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