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confusion code of phasebytransmission

yzlyzl Posts: 6Member
edited January 2013 in Ask the GATK team

Hi,

When I run PhaseByTransmission (use the parameter --MendelianViolationsFile), I found there is confusion code (like [[I@424ace42], [[I@3d2b710e], [I@6f0b6d81) in the field "MOTHER_AD", "FATHER_AD" and " CHILD_AD". As to other two filed "AC" and "TP", who can explain what is the meaning.

Thanks.

Post edited by Geraldine_VdAuwera on

Answers

  • ebanksebanks Broad InstitutePosts: 698Member, Administrator, Broadie, Moderator, Dev admin

    Thanks for the report. I'm about to fix this and it will be available in the upcoming 2.3 release.

    Eric Banks, PhD -- Director, Data Sciences and Data Engineering, Broad Institute of Harvard and MIT

  • yzlyzl Posts: 6Member

    Thanks ebanks, can you explain what is the meaning of other two filed "AC" and "TP"?

  • ebanksebanks Broad InstitutePosts: 698Member, Administrator, Broadie, Moderator, Dev admin

    AC = Allele Count, TP = Transmission Probability.

    Eric Banks, PhD -- Director, Data Sciences and Data Engineering, Broad Institute of Harvard and MIT

  • yzlyzl Posts: 6Member

    I see. Thanks ebanks

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