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feat: Reinstate snp pipeline #185

Merged
merged 21 commits into from
May 28, 2024
Merged

feat: Reinstate snp pipeline #185

merged 21 commits into from
May 28, 2024

Commits on Apr 24, 2024

  1. align output names for macs peaks if broad

    @CChahrour
    CChahrour committed Apr 24, 2024
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  2. increase resources for attempts for macs

    @CChahrour
    CChahrour committed Apr 24, 2024
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  3. remove blank row in out bed files

    @CChahrour
    CChahrour committed Apr 24, 2024
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  4. revert macs option SE handling

    @CChahrour
    CChahrour committed Apr 24, 2024
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  5. revert the PE options for macs

    @CChahrour
    CChahrour committed Apr 24, 2024
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Commits on Apr 26, 2024

  1. peak calling design sorted

    @CChahrour
    CChahrour committed Apr 26, 2024
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  2. fix peak control match

    @CChahrour
    CChahrour committed Apr 26, 2024
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  3. amend config slurm queue

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

  1. fix get control for peaks

    @CChahrour
    CChahrour committed Apr 27, 2024
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  2. lint design

    @CChahrour
    CChahrour committed Apr 27, 2024
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  3. fix lancetron no input rule

    @CChahrour
    CChahrour committed Apr 27, 2024
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  4. changes defaults in config

    @CChahrour
    CChahrour committed Apr 27, 2024
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Commits on Apr 28, 2024

  1. update snp snakefile

    @CChahrour
    CChahrour committed Apr 28, 2024
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  2. add snp to design and test initial

    @CChahrour
    CChahrour committed Apr 28, 2024
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  3. update config for snp

    @CChahrour
    CChahrour committed Apr 28, 2024
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  4. typo in tests

    @CChahrour
    CChahrour committed Apr 28, 2024
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  5. fixed config for tests

    @CChahrour
    CChahrour committed Apr 28, 2024
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Commits on Apr 29, 2024

  1. create common rules

    @CChahrour
    CChahrour committed Apr 29, 2024
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  2. fix snp tests

    @CChahrour
    CChahrour committed Apr 29, 2024
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Commits on Apr 30, 2024

  1. Merge branch 'master' into reinstate-snp-pipeline

    @alsmith151
    alsmith151 committed Apr 30, 2024
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Commits on May 10, 2024

  1. update envs

    @CChahrour
    CChahrour committed May 10, 2024
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