ind.analysis
Function
This function is used to perform individual analysis and calculate the p-values frequently used in meta-analysis. Based on the type of outcome variable,The ind.cal.ES
Function
This function is used for calculating the effect sizes (standardized mean difference) frequently used in meta-analysis.
The MetaDE.rawdata
Function
With the raw gene expression datasets, all the metheds combining the options of ind.method
and meta.method
can be implemented by function MetaDE.rawdata
.
The MetaDE.pvalue
and MetaDE.ES
Function
If p-values or effect sizes (and corresponding variances) have been calculated already, for
example by other methods not used in functions, ind.analysis
or ind.cal.ES
, with the help
of other software, then the meta-analysis can be implemented by function MetaDE.pvalue
or MetaDE.ES
.
Xingbin Wang, Yan Lin, Chi Song, Etienne Sibille and George C Tseng. (2012) Detecting disease-associated genes with confounding variable adjustment and the impact on genomic meta-analysis: with application to major depressive disorder. BMC Bioinformatics. 13:52.
George C. Tseng, Debashis Ghosh and Eleanor Feingold. (2012) Comprehensive literature review and statistical considerations for microarray meta-analysis. Nucleic Acids Research accepted Xingbin Wang, Dongwan Kang, Kui Shen, Chi Song, Lunching Chang, Serena G. Liao, Zhiguang Huo, Naftali Kaminski, Etienne Sibille, Yan Lin, Jia Li and George C. Tseng. (2012) A Suite of R Packages for Quality Control, Differentially Expressed Gene and Enriched Pathway Detection in Microarray Meta-analysis. In press.