BaseCamp --- An Agentic AI Framework for Automating DNA Sequencing Data Pipelines

arXiv cs.AISeptember 25, 2026en

arXiv:2609.28557v1 Announce Type: new Abstract: DNA sequencing pipelines, spanning quality control, alignment, variant calling, and annotation, are now reliably executed by workflow management systems that orchestrate established bioinformatics tools at scale. What remains manual is the decision layer surrounding that execution: selecting quality thresholds appropriate to a sample and platform, adjudicating borderline variant calls, diagnosing anomalies, and determining which findings warrant expert review. These decisions are repetitive, judgment-intensive, inconsistent across operators, and frequently undocumented. This paper introduces BaseCamp, a novel agentic AI framework for automating

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