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Subworkflow for organelles #18

Merged
merged 35 commits into from
Oct 31, 2023
Merged

Subworkflow for organelles #18

merged 35 commits into from
Oct 31, 2023

Commits on Jun 15, 2023

  1. Initial commit for mitohifi

    Ksenia Krasheninnikova committed Jun 15, 2023
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Commits on Jun 20, 2023

  1. Organelle subworkflow

    Ksenia Krasheninnikova committed Jun 20, 2023
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Commits on Jun 22, 2023

  1. Work in progress mitohifi

    Ksenia Krasheninnikova committed Jun 22, 2023
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Commits on Jun 28, 2023

  1. Updates to mitohifi output and testing of the full pipeline

    Ksenia Krasheninnikova committed Jun 28, 2023
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Commits on Jun 29, 2023

  1. Code cleanup

    Ksenia Krasheninnikova committed Jun 29, 2023
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  2. Prettier checks

    Ksenia Krasheninnikova committed Jun 29, 2023
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  3. Switch polishing on in the config

    Ksenia Krasheninnikova committed Jun 29, 2023
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Commits on Jul 25, 2023

  1. Refactor emit section for organelles subworkflow

    Ksenia Krasheninnikova committed Jul 25, 2023
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Commits on Oct 4, 2023

  1. Configuration menu
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  2. Fix issues after automatic merge

    Ksenia Krasheninnikova committed Oct 4, 2023
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  3. Lint and prettify

    Ksenia Krasheninnikova committed Oct 4, 2023
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Commits on Oct 6, 2023

  1. Concat reads for mitohifi input

    Ksenia Krasheninnikova committed Oct 6, 2023
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  2. Fix merging discrepancies

    Ksenia Krasheninnikova committed Oct 6, 2023
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  3. Prettier fix

    Ksenia Krasheninnikova committed Oct 6, 2023
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Commits on Oct 11, 2023

  1. CI testing

    Ksenia Krasheninnikova committed Oct 11, 2023
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  2. Fix syntax error

    Ksenia Krasheninnikova committed Oct 11, 2023
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  3. Add github testing profile to config

    Ksenia Krasheninnikova committed Oct 11, 2023
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  4. Fix spelling error

    Ksenia Krasheninnikova committed Oct 11, 2023
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Commits on Oct 12, 2023

  1. Make organelles optional

    Ksenia Krasheninnikova committed Oct 12, 2023
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  2. Switch off extra runs for github test

    Ksenia Krasheninnikova committed Oct 12, 2023
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Commits on Oct 17, 2023

  1. Drop redundant lines in emit section

    Ksenia Krasheninnikova committed Oct 17, 2023
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  2. Switch off bloom filter for hifiasm

    Ksenia Krasheninnikova committed Oct 17, 2023
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  3. Organelles on

    Ksenia Krasheninnikova committed Oct 17, 2023
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Commits on Oct 19, 2023

  1. Switch off bloom filter for hifiasm

    Ksenia Krasheninnikova committed Oct 19, 2023
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  2. Prettier modules fix

    Ksenia Krasheninnikova committed Oct 19, 2023
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  3. Fix error

    Ksenia Krasheninnikova committed Oct 19, 2023
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  4. Fix CI testing errors

    Ksenia Krasheninnikova committed Oct 19, 2023
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  5. Swtich on polishing and hifiasm hic for githuub

    Ksenia Krasheninnikova committed Oct 19, 2023
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  6. Fix image path

    Ksenia Krasheninnikova committed Oct 19, 2023
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  7. Switch off polishing

    Ksenia Krasheninnikova committed Oct 19, 2023
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Commits on Oct 20, 2023

  1. Change logic of mitohifi input

    Ksenia Krasheninnikova committed Oct 20, 2023
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  2. Clean code

    Ksenia Krasheninnikova committed Oct 20, 2023
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Commits on Oct 23, 2023

  1. Change container path to more basic

    Ksenia Krasheninnikova committed Oct 23, 2023
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Commits on Oct 30, 2023

  1. Update mitohifi to nf-core

    Ksenia Krasheninnikova committed Oct 30, 2023
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  2. Prettier checks

    Ksenia Krasheninnikova committed Oct 30, 2023
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