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Merging development branch from Malaria project - decontamination, pipelines for organisms with no variant truth set, etc. #451

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Merge branch 'rrb_malaria_from_main' of https://github.com/broadinsti…

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Merging development branch from Malaria project - decontamination, pipelines for organisms with no variant truth set, etc. #451

Merge branch 'rrb_malaria_from_main' of https://github.com/broadinsti…
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