metaMA (version 2.1)

effectsize: 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

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))