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SAC annotation

MoneteMonete BrazilMember

Hi,

I would like to know if there is a way to include SAC (StrandAlleleCountsBySample) annotation in my vcf files?

I know such annotation is only available in HC. But I want to know if there is a way to run HC again only to include such SAC annotation.

I'm asking this because HC took too much time and memory to run on my 91 samples.

Sorry if this question is repetitive or too basic, but I couldn't find the answer in another question on forum or in tutorials.

Thank you so much

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  • bhanuGandhambhanuGandham Cambridge MAMember, Administrator, Broadie, Moderator admin
    Accepted Answer

    Hi @Monete

    But I want to know if there is a way to run HC again only to include such SAC annotation.

    I don't think there is a way to only do SAC annotation with HC

  • MoneteMonete BrazilMember

    Thanks @bhanuGandham for your prompt reply

    And another question about SAC annotation: the reads counted in such annotation are informative reads (as same as in DP annotation) or are unfiltered count of reads (as same as in AD annotation)?

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