multiqc-qc-reports SKILL.md skillA
multiqc-qc-reports from jaechang-hits/sciagent-skills is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add jaechang-hits/sciagent-skills/multiqc-qc-reports@git:20260929.7a7d60fPins git:20260929.7a7d60f in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- jaechang-hits/sciagent-skills
- Path
skills/genomics-bioinformatics/qc/multiqc-qc-reports/SKILL.md- Versions recorded
- 3
- Latest version
- git:20260929.7a7d60f, committed Sep 29, 2026
- First version recorded
- May 28, 2026
- Size
- 11,700 bytes
- Repository stars
- 381
- License
- a license file GitHub does not identify
Aggregates QC from 150+ bioinformatics tools into one interactive HTML report. Scans FastQC, samtools, STAR, HISAT2, Trim Galore, featureCounts, Kallisto, Salmon, Picard, GATK logs; merges per-sample stats with plots. For NGS pipeline-wide QC. Use FastQC directly for single-sample; MultiQC for multi-sample reporting.
Collected from public GitHub. Every version is saved exactly as it was and never changes. Install it at an exact version with the mdr tool, and every file is checked before it reaches your agent. The main file is checked against the SHA-256 fingerprint recorded here, and the others against the fingerprints GitHub keeps for its source commit. The automatic checks below grade the latest version, and the same checks always give the same file the same grade.
What the file says
# MultiQC — Multi-Sample QC Report Aggregator ## Overview MultiQC automatically searches directories for QC log files from 150+ bioinformatics tools and aggregates statistics across all samples into a single interactive HTML report. It parses outputs from FastQC, samtools flagstat, STAR, HISAT2, Trim Galore, Salmon, Kallisto, featureCounts, Picard, GATK, and many more — eliminating the need to manually review per-sample QC files. Reports include interactive bar plots, scatter plots, heatmaps, and tables with configurable warnings and pass/fail thresholds. ## When to Use - Reviewing QC metrics across 10+ samples at once after FastQC, alignment, or quantification - Final QC checkpoint before differential expression or variant analysis - Sharing QC summaries with collaborators or including in publications - Identifying batch effects, outlier samples, or failed sequencing runs - Combining QC from multi-step pipelines (trimming → alignment → quantification) into one view - Use FastQC directly instead for initial single-sample QC exploration - For custom QC metrics not from standard tools, use Python/R directly; MultiQC parses tool outputs only ## Prerequisites …
Read the whole file at its exact version.
How to install
mdr add jaechang-hits/sciagent-skills/multiqc-qc-reports@sha256:5f9187829ff0f1a5The line at the top of this page pins the label git:20260929.7a7d60f, which is what most people want. This one pins the sha256 fingerprint of the contents instead, so it survives a label being moved. Either way the exact version is written to mdr.lock, and mdr install downloads and checks those contents again, so it installs them exactly or stops with an error.
[](https://markdownregistry.com/a/art_uu5snjebn6iicmvo)
3 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 3 versions of this file, between May 28, 2026 and Sep 29, 2026, about one every 62 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20260929.7a7d60f latest | 2026-09-29 | 7a7d60f | 11,700 B | A | view · diff |
| git:20260929.35fe6e3 | 2026-09-29 | 35fe6e3 | 11,749 B | A | view · diff |
| git:20260528.3e3f998 | 2026-05-28 | 3e3f998 | 10,383 B | A | view |
Audit of the latest version
- pass: Frontmatter block present
- pass: Frontmatter declares a name
- pass: Frontmatter declares a description
- pass: Size between 200 bytes and 200 KB (11700 bytes)
- pass: No zero-width or bidi control characters
- pass: No instruction hidden inside an HTML comment
- pass: No link to an exfiltration or paste host
- pass: No credential-shaped string
- pass: No instruction to send local credentials anywhere
- pass: No text hidden with inline styles
- pass: No prompt-injection phrasing
- pass: No curl or wget piped into a shell
- pass: No recursive delete of root, home or parent
- pass: No instruction to read or print local credentials
- pass: No base64 blob over 200 characters
- pass: No link to a raw IP address
- pass: No script tag
Source
jaechang-hits/sciagent-skills · 381 stars · license a license file GitHub does not identify · pushed 2026-10-16 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_uu5snjebn6iicmvo GET https://markdownregistry.com/api/v1/resolve?ref=jaechang-hits/sciagent-skills/multiqc-qc-reports GET https://markdownregistry.com/api/v1/blob/5f9187829ff0f1a51c01eb006de2fd41f576c51d8c111e7f341d4e23c97695b6
Your AI assistant does the legwork. You hear about the deals worth your word. Hand yours the standing instructions at modelranch.com and it joins the network that reads files like this one.
Guides: the SKILL.md format and its required fields · what to check before you install a skill · how to pin a skill to an exact version · where to find agent skills · keeping a team on the same skills · which agent file does what.