bio-genome-annotation-annotation-qc SKILL.md skillA
bio-genome-annotation-annotation-qc from fridrichmethod/awesome-skills is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add fridrichmethod/awesome-skills/bio-genome-annotation-annotation-qc@git:20260531.6e617c4Pins git:20260531.6e617c4 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- fridrichmethod/awesome-skills
- Path
skills/annotation-qc/SKILL.md- Versions recorded
- 1
- Latest version
- git:20260531.6e617c4, committed May 31, 2026
- Size
- 14,508 bytes
- Repository stars
- 15
- License
- a license file GitHub does not identify
Assesses the quality and completeness of a genome annotation with BUSCO (conserved single-copy ortholog recovery), OMArk (proteome completeness, consistency, and contamination), CheckM2 (prokaryotic completeness/contamination), and a gene-set sanity panel (gene count, mono-exonic fraction, protein-length distribution, mRNA:gene ratio, coding density). Covers the assembly-BUSCO-vs-proteome-BUSCO diagnostic, what BUSCO-Duplicated really means, why gene count is a vanity metric, and the QC of…
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
## Version Compatibility Reference examples tested with: BUSCO 5.5+, OMArk 0.3+, CheckM2 1.0+, compleasm 0.2.6+, gffutils 0.12+, matplotlib 3.8+. Before using code patterns, verify installed versions match. If versions differ: - CLI: `<tool> --version` then `<tool> --help` to confirm flags - Python: `pip show <package>` then `help(module.function)` to check signatures BUSCO results depend on the **lineage dataset** (e.g. `vertebrata_odb10` vs the shallow `eukaryota_odb10`) and the OrthoDB version - record them; a 99% on a shallow ~255-gene set and a 99% on a deep ~5,500-gene clade set are very different claims. If code throws an error, introspect the installed tool and adapt rather than retrying. # Annotation QC **"Is my genome annotation any good?"** -> Measure conserved-gene completeness, proteome consistency/contamination, and gene-set sanity, and decide whether the limiting factor is the assembly or the predictor. - CLI: `busco -i proteins.faa -m proteins -l <lineage>_odb10` (proteome) and `busco -i genome.fa -m genome -l <lineage>_odb10` (assembly), `omark`, `checkm2 predict` (prokaryotes) …
Read the whole file at its exact version.
How to install
mdr add fridrichmethod/awesome-skills/bio-genome-annotation-annotation-qc@sha256:4796451bee1e4c52The line at the top of this page pins the label git:20260531.6e617c4, 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_rqgwvaygmkit52du)
0 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 1 version of this file, committed on May 31, 2026.
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 (14508 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
fridrichmethod/awesome-skills · 15 stars · license a license file GitHub does not identify · pushed 2026-10-18 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_rqgwvaygmkit52du GET https://markdownregistry.com/api/v1/resolve?ref=fridrichmethod/awesome-skills/bio-genome-annotation-annotation-qc GET https://markdownregistry.com/api/v1/blob/4796451bee1e4c52b721b17d602308cdbdddfcb917446974a37e238118178400
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.