ngs-fastq-qc Skill
Validate FASTQ inputs, run local FastQC/MultiQC QC, interpret QC signals, and optionally execute fastp or Cutadapt trimming branches without overwriting raw reads. Published by openai in plugins.
What is ngs-fastq-qc Skill?
Validate FASTQ inputs, run local FastQC/MultiQC QC, interpret QC signals, and optionally execute fastp or Cutadapt trimming branches without overwriting raw reads. 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.
Key capabilities
- Includes SKILL.md support
- Reusable instructions support
- Data analysis
- Data analysis use cases
Technical details
- Install or run with Copy skill directory
When to use ngs-fastq-qc Skill
- Use it for data analysis.
Built with
Editorial notes
Source
- Creator: openai
- Repository: openai/plugins
- Skill file: plugins/ngs-analysis/skills/ngs-fastq-qc/SKILL.md
What it does
Validate FASTQ inputs, run local FastQC/MultiQC QC, interpret QC signals, and optionally execute fastp or Cutadapt trimming branches without overwriting raw reads.
Skill instructions
FASTQ QC Use this skill for QC-only, trimming-first, or FASTQ quality interpretation workflows. This skill can execute the plugin-owned local FastQ QC runner when the user approves a local run. It should decide whether trimming or additional investigation is warranted; it should not blindly trim by default. Essential Inputs Confirm: - FASTQ paths and pairing convention - whether output should be QC-only or trimmed FASTQs - known adapter or primer sequences - organism if contamination screening or host depletion is requested - output directory - whether FASTQs are raw, demultiplexed, previously trimmed, or downloaded from an archive - whether downstream analysis expects original read lengths, UMIs, or inline barcodes Public Tools Default tool set: - FastQC for raw read QC - MultiQC for project-level summary - fastp for all-in-one QC/trimming when acceptable - Cutadapt when primer/adapter handling needs explicit sequences - seqkit for quick counts, stats, and subsampling Preflight bash p
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Frequently asked questions
What is ngs-fastq-qc?
ngs-fastq-qc is a open-source AI agent skill with Copy skill directory. Validate FASTQ inputs, run local FastQC/MultiQC QC, interpret QC signals, and optionally execute fastp or Cutadapt trimming branches without overwriting raw reads.
Who is ngs-fastq-qc best for?
ngs-fastq-qc is best for reusing agent instructions, scripts, and references, data analysis workflows.
How do I install ngs-fastq-qc?
Install or run ngs-fastq-qc using Copy skill directory. Check ngs-fastq-qc for the latest setup command.
Is ngs-fastq-qc actively maintained?
ngs-fastq-qc may need a closer maintenance check before production use.
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