ngs-dna-germline-variants Skill
Run or plan deep germline WGS, WES, targeted-panel, cohort, or trio variant-calling workflows with reference-build, known-sites, QC, joint-calling, and annotation checks. Published by openai in plugins.
Decision snapshot
Is this a fit?
Data analysis, Includes SKILL.md, Reusable instructions
Compatibility not yet detected.
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Copy skill directory
19 days ago
No specific cautions were detected. Review the source and requested permissions before installing.
What is ngs-dna-germline-variants Skill?
Run or plan deep germline WGS, WES, targeted-panel, cohort, or trio variant-calling workflows with reference-build, known-sites, QC, joint-calling, and annotation checks. Published by openai in plugins. This profile combines repository metadata with install, compatibility, and usage signals so developers can quickly decide whether it fits their agent workflow before opening the source repository.
Automated repository signals based on public metadata such as recency, license, installation evidence, and adoption. These are not a security audit or endorsement. See how SkillIndex evaluates profiles.
Key capabilities
- Includes SKILL.md support
- Reusable instructions support
- Data analysis
- Data analysis use cases
Declared skill metadata
- Source file: plugins/ngs-analysis/skills/ngs-dna-germline-variants/SKILL.md
These fields retain source and confidence evidence from the indexed SKILL.md.
Compatibility and setup
- Install or run with Copy skill directory
When to use ngs-dna-germline-variants Skill
- Use it for data analysis.
Built with
Editorial notes
Source
- Creator: openai
- Repository: openai/plugins
- Skill file: plugins/ngs-analysis/skills/ngs-dna-germline-variants/SKILL.md
What it does
Run or plan deep germline WGS, WES, targeted-panel, cohort, or trio variant-calling workflows with reference-build, known-sites, QC, joint-calling, and annotation checks.
Skill instructions
Germline DNA Variants Use this skill for germline WGS, WES, or inherited-disease panel analysis from FASTQ, BAM, or CRAM. If the request is tumor-only, tumor-normal, or low-frequency molecular-barcode panel calling, use a somatic or UMI-panel skill instead. Essential Inputs Confirm: - data type: WGS, WES, or targeted panel - sample model: singleton, cohort, duo, trio, family, or case/control - input type: FASTQ, BAM, or CRAM - organism, reference build, FASTA, indexes, and contig naming - known-sites resources for BQSR, contamination, and annotation - target BED and bait BED for WES/panel data - sex/ploidy assumptions and mitochondrial/sex-chromosome requirements - desired callers, annotation outputs, and final VCF/gVCF expectations Route Prefer nf-core/sarek for full FASTQ/BAM-to-VCF workflows. Use direct GATK4, DeepVariant, samtools, or bcftools only for focused tasks or a custom workflow. Preflight command: bash python plugins/ngs-analysis/scripts/ngspreflight.py --pipeline dnagerml
Verified compatibility and discovery
Frequently asked questions
What is ngs-dna-germline-variants?
ngs-dna-germline-variants is a open-source AI agent skill with Copy skill directory. Run or plan deep germline WGS, WES, targeted-panel, cohort, or trio variant-calling workflows with reference-build, known-sites, QC, joint-calling, and annotation checks.
Who is ngs-dna-germline-variants best for?
ngs-dna-germline-variants is best for reusing agent instructions, scripts, and references, data analysis workflows.
How do I install ngs-dna-germline-variants?
Install or run ngs-dna-germline-variants using Copy skill directory. Check ngs-dna-germline-variants for the latest setup command.
Is ngs-dna-germline-variants actively maintained?
ngs-dna-germline-variants may need a closer maintenance check before production use.
Project health auto-fetched from the source repository.
Maintain this resource?
Review this source-backed profile, send a correction with evidence, or link to it from your documentation. Claims verify your relationship to the project; profile facts still require source evidence and editorial review.
