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GWAS sumstats analysis — seed

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Analyze GWAS sumstats, identify significant variants, and visualize genomic inflation factor.

Data & Analytics#bioinformatics#genomics#GWAS#variant analysis#genomic inflation factor
AuthorMubasherMohammed
Version1.0.0
Installs0

System Documentation

What problem does it solve?

This Skill simplifies the process of analyzing Genome-Wide Association Studies (GWAS) summary statistics files, allowing users to identify genome-wide significant lead variants and compute the genomic inflation factor lambda, all while providing a QQ plot visualization.

Core Features & Use Cases

  • Lead Variant Identification: Quickly identify genome-wide significant lead variants from the sumstats file.
  • Genomic Inflation Factor: Compute the genomic inflation factor lambda to assess potential inflation in p-values.
  • QQ Plot Generation: Produce a QQ plot for visualizing the distribution of observed and expected p-values.
  • Summary JSON Output: Provide a final summary JSON file with lead count, lambda, and plot path for easy access to the results.

Quick Start

Execute the 'gwas-sumstats-analysis' skill with the input sumstats file.

Dependency Matrix

Required Modules

None required

Components

scripts

💻 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: GWAS sumstats analysis — seed
Download link: https://github.com/MubasherMohammed/opencode-BioInfo/archive/main.zip#gwas-sumstats-analysis-seed

Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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