genomics-variant-calling
OfficialIdentify genetic variations in your data.
AuthorTianGzlab
Version1.0.0
Installs0
System Documentation
What problem does it solve?
This Skill automates the complex process of identifying genetic variations (SNVs, Indels) from genomic data, distinguishing true biological signals from technical noise.
Core Features & Use Cases
- Variant Calling: Supports multiple leading callers like GATK HaplotypeCaller, Mutect2, and DeepVariant for both germline and somatic variants.
- Quality Filtering: Implements VQSR or hard filtering to ensure high-quality variant calls.
- Use Case: Analyze a whole-genome sequencing BAM file to identify all single nucleotide polymorphisms (SNPs) and insertions/deletions (Indels) present in the sample, preparing the data for downstream genomic analysis.
Quick Start
Call germline variants from the provided BAM file 'sample.bam' and save the results to the 'output_dir' directory.
Dependency Matrix
Required Modules
GATK 4.xsamtoolsbcftools
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: genomics-variant-calling Download link: https://github.com/TianGzlab/OmicsClaw/archive/main.zip#genomics-variant-calling Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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