cosmic-database

Download COSMIC cancer mutation data and gene census lists via Python.

Updated Mar 10, 2026

Search Tags:#bioinformatics #genomics #mutations #data download #cosmic #cancer

Ready to run

npx skills add https://github.com/felixboehm/biochem-allergy --skill cosmic-database-felixboehm

💬 Prompt for ChatGPT / Claude Chat▼

Please help me install this Agent Skill.
Skill: cosmic-database
Source: https://github.com/felixboehm/biochem-allergy/tree/main/.claude/skills/cosmic-database
Command: npx skills add https://github.com/felixboehm/biochem-allergy --skill cosmic-database-felixboehm

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill requires requests, pandas, pysam, and includes scripts (resource) and references (resource) components.

What problem does it solve?

This Skill provides programmatic access to the COSMIC database, enabling researchers to download and analyze comprehensive cancer mutation data, gene lists, and signatures.

Core Features & Use Cases

Data Download: Download various COSMIC datasets including mutations, gene census, and signatures.
Programmatic Access: Integrate COSMIC data into bioinformatics pipelines and research workflows.
Use Case: Download the Cancer Gene Census to identify known cancer-driving genes for a specific research project.

Quick Start

Use the cosmic-database skill to download the Cancer Gene Census file.

Frequently Asked Questions about cosmic-database

High-intent search queries and answers about installing and using this skill.

FAQPage Schema

How do I download COSMIC cancer mutation data programmatically?▼

You can download COSMIC cancer mutation data programmatically using Python scripts that utilize the 'requests' library to retrieve files, requiring user authentication to access the database.

Can I retrieve specific genome assemblies like GRCh37 or GRCh38 from the COSMIC database?▼

Yes, retrieving specific genome assemblies like GRCh37 or GRCh38 from the COSMIC database is supported. The data retrieval process allows you to specify your required assembly and specific database versions.

What datasets are available to download for cancer research?▼

Available datasets for cancer research include comprehensive cancer mutation data, the Cancer Gene Census lists, mutational signatures, and structural variants for precision oncology analysis.

Do I need a user account to access COSMIC genomics files?▼

Yes, user authentication is required to access COSMIC genomics files. You must provide your credentials within the Python scripts to authorize the data downloads from the database.

What Python libraries are needed to integrate COSMIC data into bioinformatics pipelines?▼

Integrating COSMIC data into bioinformatics pipelines requires Python libraries including 'requests' for file downloads, 'pandas' for data manipulation, and 'pysam' for handling genomic data.