Man pages for cpvSNP
Gene set analysis methods for SNP association p-values that lie in genes in given gene sets
| assocPvalBySetPlot | Create a Density Plot of P-Values, Highlighting SNPs Within a... |
| createArrayData | Create a GRanges Object for a GWAS data.frame |
| degreesOfFreedom-method | ~~ Methods for Function 'degreesOfFreedom' ~~ |
| exampleArrayData | SNP Array Data to Use for Gene Set Analysis |
| geneSetAnalysis | Data to run gene set analysis methods |
| geneSetName-methods | ~~ Methods for Function 'geneSetName' ~~ |
| GeneSetResult-class | Class '"GeneSetResult"' |
| GeneSetResultCollection-class | Class '"GeneSetResultCollection"' |
| geneSets | Gene Set Collection object |
| geneToSNPList | Translate a List of Gene Ids to Their Corresponding SNP Ids |
| glossi | Calculate a Chi-squared Statistic and P-Value for Independent... |
| glossiMarginal | Calculate a Chi-squared Statistic and P-Value for Items in a... |
| GLOSSIResult-class | Class '"GLOSSIResult"' |
| GLOSSIResultCollection-class | Class '"GLOSSIResultCollection"' |
| plotPvals | Create a Plot of P-Values Against Number of SNPs per Set for... |
| pValue-method | ~~ Methods for Function 'pValue' ~~ |
| show-methods | ~~ Methods for Function 'show' in Package 'base' ~~ |
| simulate_chisq | Simulate a Chi-squared Statistic from a Distribution with a... |
| simulatedStats-method | ~~ Methods for Function 'simulatedStats' ~~ |
| statistic-methods | ~~ Methods for Function 'statistic' ~~ |
| vegas | Calculate the P-Value for a Set Using the VEGAS Method |
| vegasMarginal | Calculate the P-Value for a Set Using the VEGAS Method |
| VEGASResult-class | Class '"VEGASResult"' |
| VEGASResultCollection-class | Class '"VEGASResultCollection"' |
