Primary Python toolkit for molecular biology. Preferred for Python-based PubMed/NCBI queries (Bio.Entrez), sequence manipulation, file parsing (FASTA, GenBank, FASTQ, PDB), advanced BLAST workflows, structures, phylogenetics. For quick BLAST, use gget. For direct REST API, use pubmed-database.
8.7
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0
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Excellent bioinformatics skill with comprehensive coverage. The description clearly communicates when to use Biopython vs. alternatives (gget, pubmed-database). SKILL.md provides an outstanding overview with intuitive organization by functional modules, quick examples for each domain, common patterns, and best practices. The modular structure with 6 reference files (advanced.md, alignment.md, blast.md, databases.md, phylogenetics.md, sequence_io.md, structure.md) is well-architected for a complex toolkit. Task knowledge is exceptional with detailed workflows, code patterns, troubleshooting, and search guidelines. Novelty is strong: Biopython's complexity (7 major modules, NCBI integration, file format conversions, structural bioinformatics) would require extensive token usage and domain expertise for a CLI agent to handle ad-hoc. The skill meaningfully reduces cost and complexity for molecular biology tasks. Minor consideration: some bioinformatics tasks might be achievable with simpler tools, slightly tempering novelty score.
davila7
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