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feat: support for somatic variant calling without normal #503

Merged
merged 13 commits into from
May 6, 2024
Merged

feat: support for somatic variant calling without normal #503

merged 13 commits into from
May 6, 2024

Commits on Apr 24, 2024

  1. feat: Added support for somatic variant calling without normal sample

    @ericblanc20
    ericblanc20 committed Apr 24, 2024
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  2. feat: Support for include or exclude in filtration based on regions

    @ericblanc20
    ericblanc20 committed Apr 24, 2024
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  3. refactor: filter_sets & filter_list selection moved to Snakefile

    @ericblanc20
    ericblanc20 committed Apr 24, 2024
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Commits on Apr 25, 2024

  1. refactor: Streamlined optional addition to normal bam, & message when… 

    … extraction type is not found
    @ericblanc20
    ericblanc20 committed Apr 25, 2024
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  2. test: added test for intermediate filter, & prepared test for missing… 

    … normal
    @ericblanc20
    ericblanc20 committed Apr 25, 2024
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  3. fix: revert include/exclude direction, rename filter & fixed wrapper … 

    …description
    @ericblanc20
    ericblanc20 committed Apr 25, 2024
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Commits on May 3, 2024

  1. feat: re-enable deprecated filter_sets

    @ericblanc20
    ericblanc20 committed May 3, 2024
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  2. feat: print step config to facilitate debugging configuration errors

    @ericblanc20
    ericblanc20 committed May 3, 2024
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  3. refactor: resolve merge conflicts

    @ericblanc20
    ericblanc20 committed May 3, 2024
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  4. refactor: resolve merge conflicts take 2

    @ericblanc20
    ericblanc20 committed May 3, 2024
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  5. test: update to new config keyword

    @ericblanc20
    ericblanc20 committed May 3, 2024
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Commits on May 6, 2024

  1. style: use walrus operator, improve on error messages, default schema… 

    … set to list, config output under verbose control
    @ericblanc20
    ericblanc20 committed May 6, 2024
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  2. Merge branch 'main' into 502-somatic-variant-calling-without-normal

    @ericblanc20
    ericblanc20 authored May 6, 2024
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