NEWS
BLMA 1.0.0
Initial release of package BLMA includes
- bilevelAnalysisGeneset: a function to perform a bi-level meta-analysis in conjunction with geneset enrichment methods (ORA/GSA/PADOG) to integrate multiple gene expression datasets.
- bilevelAnalysisPathway: a function to perform a bi-level meta-analysis conjunction with Impact Analysis to integrate multiple gene expression datasets.
- intraAnalysisClassic: a function to perform an intra-experiment analysis in conjunction with any of the classical hypothesis testing methods, such as t-test, Wilcoxon test, etc.
- bilevelAnalysisClassic: a function to perform a bi-level meta-analysis in conjunction with any of the classical hypothesis testing methods, such as t-test, Wilcoxon test, etc.
- intraAnalysisGene: a function to perform an intra-experiment analysis in conjunction with the moderated t-test (limma package) for the purpose of differential expression analysis of a gene expression dataset
- bilevelAnalysisGene: a function to perform a bi-level meta-analysis in conjunction with the moderate t-test (limma package) for the purpose of differential expression analysis of multiple gene expression datasets
- loadKEGGPathways: this function loads KEGG pathways and names
- addCLT: a function to combine independent studies using the average of p-values
- fisherMethod: a function to combine independent p-values using the minus log product
- stoufferMethod: a function to combine independent studies using the sum of p-values transformed into standard normal variables