Coordinates-class       Coordinates class
GenoGAM                 GenoGAM: A package providing a framework to
                        analyse ChIP-Seq data
GenoGAM-class           GenoGAM class
GenoGAMDataSet-class    GenoGAMDataSet
GenoGAMDataSetList-class
                        GenoGAMDataSetList
GenoGAMFamily-class     GenoGAMFamily class
GenoGAMList-class       GenoGAMList class
GenoGAMSettings-class   GenoGAMSettings
Summary,GenoGAMDataSet-method
                        Computing metrics
Summary,GenoGAMDataSetList-method
                        Computing metrics
asCoordinates           IRanges to Coordinates
callPeaks               Call peaks on a GenoGAM object
computeRegionSignificance
                        Compute significance for given regions
computeSignificance     computeSignificance
computeSizeFactors      computeSizeFactors
genogam                 genogam
makeTestGenoGAM         Make an example /codeGenoGAM
makeTestGenoGAMDataSet
                        Make an example /codeGenoGAMDataSet
makeTestGenoGAMDataSetList
                        Make an example /codeGenoGAMDataSet
makeTestGenoGAMList     Make an example /codeGenoGAMList
plotGenoGAM             The pot function for a GenoGAM object
readData                Read Data function
subset,GenoGAMDataSet-method
                        Subset methods for GenoGAMDataSet
subset,GenoGAMDataSetList-method
                        Subset method for GenoGAMDataSetList
subset,GenoGAMList-method
                        Subset method for GenoGAMList
writeToBEDFile          Write peaks to BED6+3/4 format
