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vcf-toolkit

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Analyze, filter, and export VCF data efficiently.

Data & Analytics#json#genomics#filters#pysam#vcf#variant
Authordakesan
Version1.0.0
Installs0

System Documentation

What problem does it solve?

This Skill enables you to analyze, filter, and export VCF/BCF variant data, providing comprehensive statistics and region-based filtering for WGS/WES workflows.

Core Features & Use Cases

  • Statistics: Compute variant counts, quality distributions, depth, and allele frequency statistics.
  • Filtering: Filter variants by quality, depth, and allele frequency, including PASS-only options.
  • Export: Output filtered variants or statistics as JSON or new VCFs for downstream analysis.

Quick Start

Generate statistics for 'variants.vcf.gz' and filter for high-quality variants on chr1.

Dependency Matrix

Required Modules

pysamtyper

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: vcf-toolkit
Download link: https://github.com/dakesan/cc-dnawork-plugin/archive/main.zip#vcf-toolkit

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