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Added ViromeQC & options for skipping pipeline tools #82

Merged
merged 28 commits into from
Jan 18, 2024
Merged

Added ViromeQC & options for skipping pipeline tools #82

merged 28 commits into from
Jan 18, 2024

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CarsonJM
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@CarsonJM CarsonJM commented Jan 1, 2024

PR checklist

  • This comment contains a description of changes (with reason).
  • If you've fixed a bug or added code that should be tested, add tests!
  • If you've added a new tool - have you followed the pipeline conventions in the contribution docs
  • If necessary, also make a PR on the nf-core/phageannotator branch on the nf-core/test-datasets repository.
  • Make sure your code lints (nf-core lint).
  • Ensure the test suite passes (nextflow run . -profile test,docker --outdir <OUTDIR>).
  • Usage Documentation in docs/usage.md is updated.
  • Output Documentation in docs/output.md is updated.
  • CHANGELOG.md is updated.
  • README.md is updated (including new tool citations and authors/contributors).

@CarsonJM CarsonJM self-assigned this Jan 1, 2024
@CarsonJM CarsonJM added the enhancement New feature or request label Jan 1, 2024
This was linked to issues Jan 1, 2024
Add ability to skip steps in nf-cor/phageannotator #38
Closed
Add ViromeQC to nf-core/phageannotator #66
Open
@CarsonJM CarsonJM removed a link to an issue Jan 2, 2024
Add ViromeQC to nf-core/phageannotator #66
Open
@CarsonJM CarsonJM linked an issue Jan 2, 2024 that may be closed by this pull request
Add ViromeQC to nf-core/phageannotator #63
Closed
CarsonJM and others added 14 commits January 2, 2024 11:32
@CarsonJM
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@nf-core-bot fix linting

@sateeshperi
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think it is a small issue with the median.csv

@CarsonJM CarsonJM merged commit aab49b5 into nf-core:dev Jan 18, 2024
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@sateeshperi sateeshperi sateeshperi approved these changes

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Add ViromeQC to nf-core/phageannotator Add ability to skip steps in nf-cor/phageannotator
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@CarsonJM @sateeshperi @nf-core-bot