Add GPU accelerated STAR and Markdups (using Parabricks rna_fq2bam) #1685
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…TAR version than the default.
Resolve conflict in workflows/rnaseq/main.nf by keeping consistent syntax from dev while preserving new Parabricks parameters. Co-Authored-By: Claude Opus 4.5 <[email protected]>
Co-Authored-By: Claude Opus 4.5 <[email protected]>
… this after more discussion)
…eq into add_parabricks_star
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Warning Newer version of the nf-core template is available. Your pipeline is using an old version of the nf-core template: 3.5.1. For more documentation on how to update your pipeline, please see the nf-core documentation and Synchronisation documentation. |
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Changes
This PR adds GPU accelerated STAR Alignment + MarkDups (See Parabricks rna_fq2bam documentation) as an option during alignment.
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).