# Hierarchy For Package org.snpsift

Package Hierarchies:

- All Packages

## Class Hierarchy

- java.lang.Object
  - org.snpsift.SnpSift (implements org.snpeff.snpEffect.VcfAnnotator)
    - org.snpsift.SnpSiftCmdAlleleMatrix
    - org.snpsift.SnpSiftCmdAnnotate
    - org.snpsift.SnpSiftCmdAnnotateDf
    - org.snpsift.SnpSiftCmdCaseControl
    - org.snpsift.SnpSiftCmdConcordance
    - org.snpsift.SnpSiftCmdCovarianceMatrix
    - org.snpsift.SnpSiftCmdDbNsfp
    - org.snpsift.SnpSiftCmdExtractFields
    - org.snpsift.SnpSiftCmdFilter
    - org.snpsift.SnpSiftCmdFilterChrPos
    - org.snpsift.SnpSiftCmdFilterGt
    - org.snpsift.SnpSiftCmdGeneSets
    - org.snpsift.SnpSiftCmdGt
    - org.snpsift.SnpSiftCmdGwasCatalog
    - org.snpsift.SnpSiftCmdIntersect
    - org.snpsift.SnpSiftCmdIntervals
    - org.snpsift.SnpSiftCmdIntervalsIndex
    - org.snpsift.SnpSiftCmdJoin
    - org.snpsift.SnpSiftCmdPedShow
    - org.snpsift.SnpSiftCmdPhastCons
    - org.snpsift.SnpSiftCmdPrivate
    - org.snpsift.SnpSiftCmdRemoveReferenceGenotypes
    - org.snpsift.SnpSiftCmdRmInfo
    - org.snpsift.SnpSiftCmdSort
    - org.snpsift.SnpSiftCmdSplit
    - org.snpsift.SnpSiftCmdTsTv
    - org.snpsift.SnpSiftCmdVarType
    - org.snpsift.SnpSiftCmdVcf2Tped
    - org.snpsift.SnpSiftCmdVcfCheck
    - org.snpsift.SnpSiftCmdVcfOperator
  - org.snpsift.VcfLd

## Enum Class Hierarchy

- java.lang.Object
  - java.lang.Enum<E> (implements java.lang.Comparable<T>, java.lang.constant.Constable, java.io.Serializable)
    - org.snpsift.SnpSiftCmdVcf2Tped.UseMissing
    - org.snpsift.SnpSiftCmdVcfOperator.Operator