Changes in version 1.1.10: o This version of the package contains functions to perform SWAN normalisation, RUV normalisation and differential methylation analysis, differential variability analysis and gene ontology testing for the 450K array. Changes in version 1.1.3: o Added the gometh function to perform gene ontology analysis. Changes in version 1.1.2: o Added functions to perform RUV normalization and differential methylation analysis. Changes in version 0.99.9: o This version of the package has all calculations in matrix formulation and handles nuisance parameters appropriately. Changes in version 0.99.7: o Added new function, contrasts.varFit. Changes in version 0.99.6: o Modified getLeveneResiduals Changes in version 0.99.5: o Modified the varFit function to accept DGEList objects for differential variability testing for RNA-Seq data. Changes in version 0.99.4: o First version of package contains functions to perform SWAN normalisation and differential variability analysis for DNA methylation data from Illumina's Infinium HumanMethylation450 beadchip.