Zero-shot ecological annotation of microbial genomes with myLLannotator accelerates scientific discovery

Large language models (LLMs) are promising scientific assistants, but many models remain inaccessible for resource-constrained scientists. To address this, we present myLLannotator, a python package for metadata annotation built on llama3.2-3B. myLLannotator labels 18,000+ genomes in ~2 hours on a laptop, reproducing a discovery involving substantial manual annotation. We use myLLannotator to discover that duplicated genes are depleted in endosymbiotic bacteria, demonstrating its power to accelerate hypothesis testing and discovery.