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Added a new suite of tools for variant filtering based on site-level annotations. #7954

Merged
merged 10 commits into from
Aug 9, 2022
Merged

Added a new suite of tools for variant filtering based on site-level annotations. #7954

merged 10 commits into from
Aug 9, 2022

Commits on Jul 28, 2022

  1. Adds wdl that tests joint VCF filtering tools (#7932) 

    * adding filtering wdl

* renaming pipeline

* addressing comments

* added bash

* renaming json

* adding glob to extract for extra files

* changing dollar signs

* small comments
    @meganshand @samuelklee
    meganshand authored and samuelklee committed Jul 28, 2022
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  2. Added changes for specifying model backend and other tweaks to WDLs a… 

    …nd environment.
    @samuelklee
    samuelklee committed Jul 28, 2022
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  3. Added classes for representing a collection of labeled variant annota… 

    …tions.
    @samuelklee
    samuelklee committed Jul 28, 2022
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  4. Added interfaces for modeling and scoring backends.

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    samuelklee committed Jul 28, 2022
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  5. Added a new suite of tools for variant filtering based on site-level … 

    …annotations.
    @samuelklee
    samuelklee committed Jul 28, 2022
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  6. Added integration tests.

    @samuelklee
    samuelklee committed Jul 28, 2022
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  7. Added test resources and expected results.

    @samuelklee
    samuelklee committed Jul 28, 2022
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  8. Miscellaneous changes.

    @samuelklee
    samuelklee committed Jul 28, 2022
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  9. Removed non-ASCII characters.

    @samuelklee
    samuelklee committed Jul 28, 2022
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Commits on Aug 9, 2022

  1. Added documentation for TrainVariantAnnotationsModel and addressed re… 

    …view comments.
    @samuelklee
    samuelklee committed Aug 9, 2022
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