proposal to trim sequence

[ggabernet]

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/airrflow 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).

[JustBioinfo]

As for assemblepairs_sequential, it's a solution I'd already discussed with the team and I don't remember exactly why, but they didn't want to use the reference, I can ask them again if necessary.
It turns out that assemblepairs_join really inflates our numbers of productive sequences at the end of the pipeline, so this option is necessary to recover more than 40% of sequences that wouldn't merge without it.