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Workflow to apply NCR and reference artifact filters and remove zero-carrier sites #653

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Workflow to apply NCR and reference artifact filters and remove zero-carrier sites #653

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Commits on Mar 5, 2024

  1. add wdl and script for NCR, ref artifact, and zero carrier site filte… 

    …ring
    @epiercehoffman
    epiercehoffman committed Mar 5, 2024
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  2. add test json, fix script

    @epiercehoffman
    epiercehoffman committed Mar 5, 2024
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Commits on Mar 7, 2024

  1. script should be a file not a string

    @epiercehoffman
    epiercehoffman committed Mar 7, 2024
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Commits on Mar 8, 2024

  1. when applying filter remove PASS

    @epiercehoffman
    epiercehoffman committed Mar 8, 2024
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  2. linting

    @epiercehoffman
    epiercehoffman committed Mar 8, 2024
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  3. linting

    @epiercehoffman
    epiercehoffman committed Mar 8, 2024
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Commits on Apr 23, 2024

  1. rename variant ids, remove existing ncr annots, diploid GTs, ME DEL S… 

    …VLEN
    @epiercehoffman
    epiercehoffman committed Apr 23, 2024
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  2. linting

    @epiercehoffman
    epiercehoffman committed Apr 23, 2024
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Commits on Apr 26, 2024

  1. don't fix ME dels - done during additional filtering

    @epiercehoffman
    epiercehoffman committed Apr 26, 2024
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  2. set filter to PASS if empty

    @epiercehoffman
    epiercehoffman committed Apr 26, 2024
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Commits on Apr 27, 2024

  1. output id rename map

    @epiercehoffman
    epiercehoffman committed Apr 27, 2024
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