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…ample_id param, and format docs
Add RNAFramework analysis modules (rf-count, rf-norm, rf-fold)
…urce requirements.
When the GTF contains versioned transcript IDs (e.g. URS000000DE3A_9606.0) but the dotplot stem is unversioned (URS000000DE3A_9606), the lookup found no match. Store a versionless alias in load_transcripts so both forms resolve to the same entry.
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Prepared a first version of this analysis pipeline using nf-core/modules and RNA framework.
Some output types may still be missing before it is complete.
PR checklist
nf-core pipelines lint).nextflow run . -profile test,docker --outdir <OUTDIR>).nextflow run . -profile debug,test,docker --outdir <OUTDIR>).docs/usage.mdis updated.docs/output.mdis updated.CHANGELOG.mdis updated.README.mdis updated (including new tool citations and authors/contributors).