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unselected RNA-seq based workflow #334

Merged
merged 49 commits into from
Jul 17, 2024
Merged

unselected RNA-seq based workflow #334

merged 49 commits into from
Jul 17, 2024

Commits on Mar 21, 2024

  1. first steps & sc run

    @mapo9
    mapo9 committed Mar 21, 2024
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Commits on Mar 25, 2024

  1. input change

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    mapo9 committed Mar 25, 2024
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Commits on Apr 10, 2024

  1. stage before pull

    @mapo9
    mapo9 committed Apr 10, 2024
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  2. Merge remote-tracking branch 'origin/master' into dev

    @mapo9
    mapo9 committed Apr 10, 2024
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Commits on Apr 11, 2024

  1. merged most recent airrflow version

    @mapo9
    mapo9 committed Apr 11, 2024
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  2. barcode airr test

    @mapo9
    mapo9 committed Apr 11, 2024
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Commits on Apr 23, 2024

  1. Merge pull request nf-core#325 from nf-core/dev 

    Release 4.0
    @ggabernet
    ggabernet authored Apr 23, 2024
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Commits on May 6, 2024

  1. dev update

    @mapo9
    mapo9 committed May 6, 2024
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  2. Merge branch 'master' of https://github.com/mapo9/airrflow into trust4

    @mapo9
    mapo9 committed May 6, 2024
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Commits on May 7, 2024

  1. skip presto reporting which doesnt happen when trust4 is used

    @mapo9
    mapo9 committed May 7, 2024
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Commits on May 8, 2024

  1. linting

    @mapo9
    mapo9 committed May 8, 2024
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  2. fastp before trust4

    @mapo9
    mapo9 committed May 8, 2024
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Commits on May 10, 2024

  1. fastp before trust4

    @mapo9
    mapo9 committed May 10, 2024
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Commits on May 16, 2024

  1. bulk and sc rnaseq input

    @mapo9
    mapo9 committed May 16, 2024
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  2. bulk rnaseq test workflow

    @mapo9
    mapo9 committed May 16, 2024
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  3. sc rnaseq tests

    @mapo9
    mapo9 committed May 16, 2024
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  4. docs

    @mapo9
    mapo9 committed May 16, 2024
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  5. linting & prettier

    @mapo9
    mapo9 committed May 16, 2024
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  6. trailing whitespace

    @mapo9
    mapo9 committed May 16, 2024
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  7. trailing whitespace

    @mapo9
    mapo9 committed May 16, 2024
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Commits on May 21, 2024

  1. bugfix

    @mapo9
    mapo9 committed May 21, 2024
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  2. trailing whitespace

    @mapo9
    mapo9 committed May 21, 2024
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  3. view statement removed

    @mapo9
    mapo9 committed May 21, 2024
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Commits on May 23, 2024

  1. incorporating review comments

    @mapo9
    mapo9 committed May 23, 2024
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  2. fix test

    @mapo9
    mapo9 committed May 23, 2024
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  3. removed view statement

    @mapo9
    mapo9 committed May 23, 2024
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Commits on May 28, 2024

  1. Merge branch 'dev' of https://github.com/ggabernet/nf-core-airrflow i… 

    …nto trust4
    @ggabernet
    ggabernet committed May 28, 2024
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  2. generate reference fasta

    @ggabernet
    ggabernet committed May 28, 2024
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  3. channel in wrong subworkflow

    @ggabernet
    ggabernet committed May 28, 2024
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  4. generate trust4 reference

    @ggabernet
    ggabernet committed May 28, 2024
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Commits on May 29, 2024

  1. Merge branch 'dev' of https://github.com/nf-core/airrflow into trust4

    @ggabernet
    ggabernet committed May 29, 2024
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Commits on May 30, 2024

  1. update container airrflow 4.1.0

    @ggabernet
    ggabernet committed May 30, 2024
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  2. test the dev container

    @ggabernet
    ggabernet committed May 30, 2024
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  3. update container

    @ggabernet
    ggabernet committed May 30, 2024
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  4. update changelog

    @ggabernet
    ggabernet committed May 30, 2024
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  5. improve protocol logs

    @ggabernet
    ggabernet committed May 30, 2024
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  6. presto wasnt updated

    @ggabernet
    ggabernet committed May 30, 2024
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  7. fix linting

    @ggabernet
    ggabernet committed May 30, 2024
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  8. rm irrelevant param

    @ggabernet
    ggabernet committed May 30, 2024
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  9. Merge branch 'dev' of https://github.com/ggabernet/nf-core-airrflow i… 

    …nto trust4
    @ggabernet
    ggabernet committed May 30, 2024
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Commits on May 31, 2024

  1. merge dev

    @ggabernet
    ggabernet committed May 31, 2024
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  2. add param skip alignment filter

    @ggabernet
    ggabernet committed May 31, 2024
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Commits on Jun 3, 2024

  1. add 'config_profile_url' default

    @mapo9
    mapo9 committed Jun 3, 2024
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Commits on Jun 5, 2024

  1. trust4 nf-core module

    @mapo9
    mapo9 committed Jun 5, 2024
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Commits on Jul 17, 2024

  1. improve docs

    @ggabernet
    ggabernet committed Jul 17, 2024
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  2. Merge branch 'trust4' of https://github.com/mapo9/airrflow into trust4

    @ggabernet
    ggabernet committed Jul 17, 2024
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  3. fix prettier

    @ggabernet
    ggabernet committed Jul 17, 2024
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  4. add locus selection to rnaseq workflow

    @ggabernet
    ggabernet committed Jul 17, 2024
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  5. fix issue with merge_UMI

    @ggabernet
    ggabernet committed Jul 17, 2024
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