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Update all modules #267

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Merged
maxulysse merged 7 commits into from
Dec 5, 2025
Merged

Update all modules #267

maxulysse merged 7 commits into from
Dec 5, 2025

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@maxulysse maxulysse commented Dec 5, 2025

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/rnavar branch on the nf-core/test-datasets repository.
  • Make sure your code lints (nf-core pipelines lint).
  • Ensure the test suite passes (nextflow run . -profile test,docker --outdir <OUTDIR>).
  • Check for unexpected warnings in debug mode (nextflow run . -profile debug,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).

@maxulysse maxulysse changed the title Update modules Update all modules Dec 5, 2025
maxulysse
maxulysse commented Dec 5, 2025
View reviewed changes
CITATIONS.md
Comment on lines -87 to -89
- [VEP](https://pubmed.ncbi.nlm.nih.gov/27268795/)

> McLaren W, Gil L, Hunt SE, et al.: The Ensembl Variant Effect Predictor. Genome Biol. 2016 Jun 6;17(1):122. doi: 10.1186/s13059-016-0974-4. PubMed PMID: 27268795; PubMed Central PMCID: PMC4893825.
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@maxulysse maxulysse Dec 5, 2025

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This was already there at the EnsemblVEP entry 🤦

@maxulysse maxulysse merged commit e90c8bf into nf-core:dev Dec 5, 2025
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