biopython

biopython is a skill for Claude Code, Codex from halflifezyf2680/Skill-Shelf. It costs 76 tokens per session (4,218 once invoked), scanned A, original, no licence file.

A Python toolkit for working with biological data such as DNA, protein sequences, scientific file formats, evolutionary trees, and NCBI or PubMed records.

In plain words
What is it for?
Use it to edit and parse sequences, read FASTA, GenBank, or PDB files, build phylogenetic analyses, query NCBI or PubMed, and automate BLAST workflows.
Why use it?
It avoids writing separate code for common biology-data tasks and supports repeatable processing of many files or records.

Skill for Claude CodeCodex

Install

Getting it into your agent

One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.

agentmods
npx agentmods add skills/halflifezyf2680/skill-shelf/biopython
Any agent
npx skills add halflifezyf2680/Skill-Shelf --skill biopython
Clone the repo
git clone --depth 1 https://github.com/halflifezyf2680/Skill-Shelf

Made for: Claude Code, Codex.

Wrote this? Show the measurements

A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.

agentmods badge for biopython

README.md
[![agentmods](https://agentmods.dev/badge/skills/halflifezyf2680/skill-shelf/biopython.svg)](https://agentmods.dev/skills/halflifezyf2680/skill-shelf/biopython)
Your own site
<a href="https://agentmods.dev/skills/halflifezyf2680/skill-shelf/biopython"><img src="https://agentmods.dev/badge/skills/halflifezyf2680/skill-shelf/biopython.svg" alt="Measured on agentmods" height="20"></a>
Per session 76 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 4,218 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 1 finding. Scan, not verified.
Origin unknown No closer match found in the catalogue.
Token cost

What it costs to keep this loaded

Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.

ModelPer sessionOnce invoked
Fable 5 $0.00076 $0.04218
Opus 5 $0.00038 $0.02109
Sonnet 5 $0.00015 $0.00844
Haiku 4.5 $0.00008 $0.00422

Measured today against content hash a2ea6794fb2f, method: parsed. Prices are Anthropic first-party input rates as of 2026-08-30, from the pricing page.

Security

Grade A, and why

biopython scanned grade A with 1 finding against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured today.

A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.

Makes network callslowCapability

Not a fault in itself. Listed so you know the mod talks to something, and to what.

from urllib.error import HTTPError
data/hub/packages/academic-research/biopython/SKILL.md · 489 lines

The source is not reproduced here

A licence we could not identify

The repository carries a LICENSE file, but it is custom or dual enough that GitHub cannot name it and neither can this catalogue. Unknown terms are not permission, so the body is not copied here. Read the licence at the source and decide for yourself.

Read it on GitHub

Files

What ships with it

8 files beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.

Changes

What this file has done since we first saw it

Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.

  1. today Changed · +47 lines a2ea6794fb2f
  2. 5d ago First seen · 442 lines · 76 tokens per session scan A bee6b6274224

Subscribe to this mod's changes

biopython is a skill published in the GitHub repository halflifezyf2680/Skill-Shelf (4 stars, last pushed today), with no licence file. It adds 76 tokens to every session and 4,218 once invoked, about $0.0004 per session on Opus 5. A static security scan graded it A with 1 finding (makes network calls). No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-31.

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