NIAID BRC Codeathons
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Repositories
- viral-phylogenetics Public
Optimizing protein language model to predict viral protein structures at scale
- workflow-generation-mcp Public
Automating bioinformatics workflow design, refinement, and execution using generative AI models guided through the Model Context Protocol (MCP)
- gene-function-prediction Public
Leveraging machine learning and AI to predict functions of characterized and uncharacterized genes using K-mers, ensemble methods, and LLM embeddings
- hiperrag-literature-extraction Public
Leveraging high-performance retrieval-augmented generation to extract and curate structured biological data for CEPI priority pathogens from scientific literature
- RDF-knowledge-graph-construction Public
Transforming Pathogen Data Network Resources to RDF using Large Language Models
- storyseq-sequence-narrative Public
Automating sequence identification and contextualization using BLAST, database queries, and LLM narrative synthesis to accelerate pathogen and AMR gene discovery
- pubmed-miner Public
Automated extraction of viral sequence features, mutations, and epitopes from PubMed literature using LLMs to accelerate outbreak response and genomic analysis
- workflow-training-data-extraction Public
Creating structured question-answer training datasets from BRC resources and publications to train LLMs for bioinformatics workflow generation
- ai-dataset-and-analysis-discovery Public
Enabling bench scientists to start with analysis goals and receive both relevant datasets and executable workflows—a complete path from question to execution.
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