sequence

sequence

Analyze biological sequences using Biopython — translate, align, parse FASTA/GenBank.

What it does

CLI tool for biological sequence analysis: translate DNA to protein, reverse complement, parse FASTA/GenBank files, perform pairwise alignments, compute GC content, and search for motifs. Built on Biopython.

Setup

cd sequence
python3 -m venv .venv && source .venv/bin/activate && pip install biopython -q

Environment variables

None.

Usage

python3 scripts/sequence_tools.py --help

Dependencies

• biopython

Tested with

• Direct script run: pass (graceful error when biopython not installed)
• Agno agent (Claude Haiku 4.5): pass

Agno agent verdict

Agent loaded the skill and described sequence translation, alignment, and FASTA/GenBank parsing capabilities.

Fix notes

• Cleaned __pycache__/, 6 ruff lint fixes