user-friendly pipeline for GWAS fine-mapping.
Project description
easyfinemap
A flexible framework for GWAS fine-mapping
- Documentation: https://Jianhua-Wang.github.io/easyfinemap
- GitHub: https://github.com/Jianhua-Wang/easyfinemap
- PyPI: https://pypi.org/project/easyfinemap/
- License: MIT
Features
- Formatting of summary statistics using smunger.
- Fast extraction of summary statistics for fine-mapping using tabix/bgzip.
- Checking and formatting of LD reference.
- Representation of variants using Unique SNP ID.
- Support for identifying independent loci using three methods: distance, LD clumping, and conditional analysis.
- Fine-mapping without the need for LD reference.
- Support for four LD-based fine-mapping tools and function-based fine-mapping.
- Fine-mapping combined with conditional analysis.
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