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: 689Member, Administrator, GATK Dev, Broadie, Moderator, DSDE Dev, GP Member 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 -- Senior Group Leader, MPG Analysis, 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: 689Member, Administrator, GATK Dev, Broadie, Moderator, DSDE Dev, GP Member admin

    AC = Allele Count, TP = Transmission Probability.

    Eric Banks, PhD -- Senior Group Leader, MPG Analysis, Broad Institute of Harvard and MIT

  • yzlyzl Posts: 6Member

    I see. Thanks ebanks

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