busco-status-interpretation SKILL.md skillA
busco-status-interpretation 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/busco-status-interpretation@git:20260528.3e3f998Pins git:20260528.3e3f998 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/busco-status-interpretation/SKILL.md- Versions recorded
- 1
- Latest version
- git:20260528.3e3f998, committed May 28, 2026
- Size
- 15,484 bytes
- Repository stars
- 381
- License
- a license file GitHub does not identify
Guide to interpreting BUSCO completeness statuses: why Duplicated BUSCOs count as complete, parsing output files, computing/comparing completeness across proteomes/genomes, common counting mistakes. Use when running BUSCO QC, comparing assemblies, or reporting completeness. See also: prokka-genome-annotation for annotation workflows feeding BUSCO.
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
# BUSCO Status Interpretation Guide ## Overview BUSCO (Benchmarking Universal Single-Copy Orthologs) is the standard tool for assessing genome, transcriptome, and proteome completeness by searching for conserved single-copy orthologs from the OrthoDB database. Correct interpretation of BUSCO output is essential for genome quality assessment, comparative genomics, and publication-ready reporting. The most common analytical error is excluding Duplicated BUSCOs from completeness counts, which artificially penalizes polyploid organisms and assemblies with legitimate gene duplications. This guide covers BUSCO status categories, output file formats, parsing strategies, cross-proteome comparisons, lineage dataset selection, and common pitfalls in BUSCO interpretation. --- ## Key Concepts ### BUSCO Status Categories BUSCO assigns each searched ortholog one of four statuses: | Status | Abbreviation | Meaning | Count as Complete? | |---|---|---|---| | **Complete (single-copy)** | S | Found exactly once in the genome/proteome | YES | | **Duplicated** | D | Found more than once (multiple copies) | YES | | **Fragmented** | F | Partial match, likely incomplete gene model | NO | …
Read the whole file at its exact version.
How to install
mdr add jaechang-hits/sciagent-skills/busco-status-interpretation@sha256:d84269fcc7da4974The line at the top of this page pins the label git:20260528.3e3f998, 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_velk4dhyhbm34nay)
3 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 1 version of this file, committed on May 28, 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 (15484 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_velk4dhyhbm34nay GET https://markdownregistry.com/api/v1/resolve?ref=jaechang-hits/sciagent-skills/busco-status-interpretation GET https://markdownregistry.com/api/v1/blob/d84269fcc7da49748c3a493c1fe3658278646e76b69ac78b1be9cca2db3eba40
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.