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TransmissionDisequilibriumTest

Wittkowski transmission disequilibrium test

Category Annotation Modules

VCF Field INFO (variant-level)

Type RodRequiringAnnotation

Header definition line
  • INFO=<ID=TDT,Number=A,Type=Float,Description="Test statistic from Wittkowski transmission disequilibrium test.">

  • Overview

    This annotation indicates the presence of a genetic linkage between a genetic marker and a genetic trait.

    Statistical notes

    The calculation is based on the derivation described in http://en.wikipedia.org/wiki/Transmission_disequilibrium_test#A_modified_version_of_the_TDT.

    Caveat

    • This annotation requires a valid pedigree file.
    • This annotation can only be used with VariantAnnotator (not with UnifiedGenotyper or HaplotypeCaller).

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    GATK version 3.6-0-g89b7209 built at 2017/02/09 12:52:48.