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metaMA (version 3.1.3)

directEScombi: Direct effect size combination

Description

Combines effect sizes already calculated.

Usage

directEScombi(ES, varES, BHth = 0.05, useREM = TRUE)

Arguments

ES

Matrix of effect sizes. Each column of ES corresponds to one study and each row to one gene.

varES

Matrix of effect size variances. Each column of varES corresponds to one study and each row to one gene.

BHth

Benjamini Hochberg threshold. By default, the False Discovery Rate is controlled at 5%.

useREM

A logical value indicating whether or not to include the between-study variance into the model.

Value

List

DEindices

Indices of differentially expressed genes at the chosen Benjamini Hochberg threshold.

TestStatistic

Vector with test statistics for differential expression in the meta-analysis.

Details

Combines effect sizes with the method presented in (Choi et al., 2003).

References

Choi, J. K., Yu, U., Kim, S., and Yoo, O. J. (2003). Combining multiple microarray studies and modeling interstudy variation. Bioinformatics, 19 Suppl 1.