alterlab-cosmic
CommunityAccess COSMIC cancer mutations programmatically.
Data & Analytics#cosmic#cancer-genomics#gene-census#data-download#mutational-signatures#mutation-data
AuthorAlterLab-IEU
Version1.0.0
Installs0
System Documentation
What problem does it solve?
Researchers need reliable access to COSMIC cancer mutation data for genomics analyses, without manual web downloads or repetitive scripting.
Core Features & Use Cases
- Programmatic access to core mutation data (CosmicMutantExport.tsv.gz), Cancer Gene Census, mutational signatures, structural variants, copy number data, and resistance mutations.
- Integrates with Python data pipelines and standard bioinformatics tools to download, parse (TSV/VCF), and filter mutation records for study genes or cancer types.
- Example: fetch TP53 mutations across GRCh38 samples and generate a mutation frequency table to support downstream analyses.
Quick Start
Run the COSMIC data download utility with your COSMIC account credentials to fetch a file such as GRCh38/cosmic/latest/CosmicMutantExport.tsv.gz.
Dependency Matrix
Required Modules
requests
Components
scriptsreferences
💻 Claude Code Installation
Recommended: Let Claude install automatically. Simply copy and paste the text below to Claude Code.
Please help me install this Skill: Name: alterlab-cosmic Download link: https://github.com/AlterLab-IEU/AlterLab-Academic-Skills/archive/main.zip#alterlab-cosmic Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
Agent Skills Search Helper
Install a tiny helper to your Agent, search and equip skill from 471,000+ vetted skills library on demand.