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Last data update: 2014.03.03

R: Calculates effect sizes from given t or moderated t...

effectsize

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 with contribution from Ankur Ravinarayana Chakravarthy

References

Marot, G., Foulley, J.-L., Mayer, C.-D., Jaffrezic, F. Moderated effect size combination for microarray meta-analyses and comparison study. 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))