synthetic-sciences/openscience is an AI workbench that carries out scientific research by reading papers, forming hypotheses, writing and running code, conducting experiments, analyzing results, and preparing reports. Researchers use it for work in machine learning, biology, physics, and chemistry with remote or local models. Catalogue add-ons extend its scientific workflows through skills and instructions.
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.
npx skills add synthetic-sciences/openscience --skill cosmic-databasegit clone --depth 1 https://github.com/synthetic-sciences/openscienceWrote 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.
[](https://agentmods.dev/skills/synthetic-sciences/openscience/cosmic-database)<a href="https://agentmods.dev/skills/synthetic-sciences/openscience/cosmic-database"><img src="https://agentmods.dev/badge/skills/synthetic-sciences/openscience/cosmic-database/github.svg" alt="Measured on agentmods" height="20"></a>Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.
<a href="https://agentmods.dev/skills/synthetic-sciences/openscience/cosmic-database"><img src="https://agentmods.dev/badge/skills/synthetic-sciences/openscience/cosmic-database.svg" alt="Reviewed on agentmods" width="80" height="20"></a>- NVIDIA SkillSpector pass
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.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5.1 | $0.00039 | $0.02477 |
| Opus 5.5 | $0.00016 | $0.00991 |
| Sonnet 5.5 | $0.00008 | $0.00495 |
| Haiku 4.5 | $0.00004 | $0.00248 |
Grade A, and why
cosmic-database scanned grade A with 0 findings 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 1mo ago.
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.
Nothing flagged
None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.
Copies of this mod
7 near-identical copies found in the catalogue:
- cosmic-database — 97% identical, 13 lines differ
- cosmic-database — 95% identical, 7 lines differ
- cosmic-database — 95% identical, 7 lines differ
- cosmic-database — 86% identical, 10 lines differ
- cosmic-database — 86% identical, 10 lines differ
- cosmic-database — 86% identical, 10 lines differ
- cosmic-database — 86% identical, 10 lines differ
How it starts
The opening of the file, as written. The whole thing — 342 lines — stays where its author put it; the contents beside it link to each section on GitHub.
COSMIC Database
Overview
COSMIC (Catalogue of Somatic Mutations in Cancer) is the world's largest and most comprehensive database for exploring somatic mutations in human cancer. Access COSMIC's extensive collection of cancer genomics data, including millions of mutations across thousands of cancer types, curated gene lists, mutational signatures, and clinical annotations programmatically.
When to Use This Skill
This skill should be used when:
- Downloading cancer mutation data from COSMIC
- Accessing the Cancer Gene Census for curated cancer gene lists
- Retrieving mutational signature profiles
- Querying structural variants, copy number alterations, or gene fusions
- Analyzing drug resistance mutations
- Working with cancer cell line genomics data
- Integrating cancer mutation data into bioinformatics pipelines
- Researching specific genes or mutations in cancer contexts
Prerequisites
Account Registration
COSMIC requires authentication for data downloads:
- Academic users: Free access with registration at https://cancer.sanger.ac.uk/cosmic/register
- Commercial users: License required (contact QIAGEN)
Python Requirements
uv pip install requests pandas
Quick Start
1. Basic File Download
Use the scripts/download_cosmic.py script to download COSMIC data files:
from scripts.download_cosmic import download_cosmic_file
# Download mutation data
download_cosmic_file(
email="[email protected]",
password="your_password",
filepath="GRCh38/cosmic/latest/CosmicMutantExport.tsv.gz",
output_filename="cosmic_mutations.tsv.gz"
)
2. Command-Line Usage
# Download using shorthand data type
python scripts/download_cosmic.py [email protected] --data-type mutations
# Download specific file
python scripts/download_cosmic.py [email protected] \
--filepath GRCh38/cosmic/latest/cancer_gene_census.csv
# Download for specific genome assembly
python scripts/download_cosmic.py [email protected] \
--data-type gene_census --assembly GRCh37 -o cancer_genes.csv
What ships with it
2 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.
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.
- 1mo ago Changed · +6 lines b679a3675e75
- 1mo ago First seen · 336 lines · 39 tokens per session scan A 51a335117229
cosmic-database is a skill published in the GitHub repository synthetic-sciences/openscience (4,121 stars, last pushed 2d ago), licensed Apache-2.0. It adds 39 tokens to every session and 2,477 once invoked, about $0.0002 per session on Opus 5.5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-09-03.
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