Process molecular biology sequences programmatically
biopythonskillsetup L2★27,559
K-Dense-AI/scientific-agent-skills ↗What it does
Manipulate sequences and access NCBI
Best for
When writing batch molecular biology pipelines that manipulate sequences, parse multiple file formats, and access NCBI programmatically.
Inputs
- · Sequence files (FASTA, GenBank)
- · NCBI query terms
Outputs
- · Parsed sequence records
- · Alignment results
- · NCBI metadata
Requires
- · NCBI Entrez
- · BLAST
Preconditions
- · Python 3.10+
- · Biopython 1.87+ installed
- · NCBI email set (Entrez queries)
Failure modes
- · NCBI rate limit (3 req/s) causes intermittent failures
- · GenBank file format ambiguity in legacy sequences
Trust signals
- · Biopython 1.87 (current, CVE-2025-68463 fixed)