effectsize {metaMA}R Documentation

Calculates effect sizes from given t or moderated t statistics

Description

Function not to be used separately.

Usage

effectsize(tstat, ntilde, m)

Arguments

tstat Vector of test statistics and effect sizes.
ntilde Proportion factor between a test statistic and its corresponding effect size.
m Number of degrees of freedom.

Value

Matrix with one row per gene, and in column:

d Commonly used effect size (which is biased)
vard Variance of the commonly used effect size
dprime Unbiased effect size
vardprime Variance of the unbiased effect size

Author(s)

Guillemette Marot

References

Marot, G., Foulley, J.-L., Mayer, C.-D., Jaffrezic, F. Moderated effect size and p-value combinations for microarray meta-analyses. Submitted.

Examples

#for SMVar: 
#stati$TestStat[order(stati$GeneId)],length(classes[[i]]),stati$DegOfFreedom[order(stati$GeneId)])
#for Limma
#effectsize(fit2i$t,length(classes[[i]]),(fit2i$df.prior+fit2i$df.residual))

[Package metaMA version 1.1 Index]