Changes in version 1.7.9: o added more options to return dosage of different alleles Changes in version 1.7.7: o added methods to calculate and plot reference allele fraction Changes in version 1.7.6: o HWE method returns additional columns and allows permutation of genotypes Changes in version 1.7.5: o Added SeqVarData class to combine sample annotation with GDS object Changes in version 1.7.4: o HWE works on biallelic INDELs as well as SNVs Changes in version 1.7.3: o Add methods for duplicateDiscordance with two datasets o Add alternateAlleleDetection Changes in version 1.5.1: o Use existing isSNV generic from VariantAnnotation instead of redefining o Use BiocStyle for vignette