Package picard.vcf.filter

package picard.vcf.filter
  • Class
    Description
    AlleleBalanceFilter
    Filters out a record if the allele balance for heterozygotes is out of a defined range across all samples.
    DepthFilter
    Filters out a record if all variant samples have depth lower than the given value.
    FilterApplyingVariantIterator
    Iterator that dynamically applies filter strings to VariantContext records supplied by an underlying iterator.
    FilterVcf
    Applies a set of hard filters to Variants and to Genotypes within a VCF.
    FisherStrandFilter
    Filters records based on the phred scaled p-value from the Fisher Strand test stored in the FS attribute.
    GenotypeFilter
    An interface for classes that perform Genotype filtration.
    GenotypeQualityFilter
    Genotype filter that filters out genotypes below a given quality threshold.
    QdFilter
    Filters out sites that have a QD annotation applied to them and where the QD value is lower than a lower limit.
    VariantFilter
    Interface for classes that can generate filters for VariantContexts.