phe
phe.annotations
phe.annotations.CoverageAnnotator
phe.mapping
phe.mapping.Bowtie2Mapper
phe.mapping.BWAMapper
phe.mapping.mapping_factory
phe.metadata
phe.utils
phe.utils.reader
phe.variant
phe.variant.GATKVariantCaller
phe.variant.MPileupVariantCaller
phe.variant.variant_factory
phe.variant_filters
phe.variant_filters.ADFilter
phe.variant_filters.DepthFilter
phe.variant_filters.DP4Filter
phe.variant_filters.GQFilter
phe.variant_filters.GTFilter
phe.variant_filters.MQ0FFilter
phe.variant_filters.MQ0Filter
phe.variant_filters.MQFilter
phe.variant_filters.QualFilter