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Add porechop_abi to the pipeline

Open LilyAnderssonLee opened this issue 6 months ago • 9 comments

Add Porechop_ABI to the pipeline as an alternative for adapter removal in long-read Oxford Nanopore data.

Close the issue https://github.com/nf-core/taxprofiler/issues/145

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/taxprofiler 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>).
  • [ ] 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).

LilyAnderssonLee avatar Jul 31 '24 08:07 LilyAnderssonLee