bio-gene-calling SKILL.md skillA
bio-gene-calling from fmschulz/omics-skills is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add fmschulz/omics-skills/bio-gene-calling@git:20261001.bf5afd6Pins git:20261001.bf5afd6 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- fmschulz/omics-skills
- Path
skills/bio-gene-calling/SKILL.md- Versions recorded
- 6
- Latest version
- git:20261001.bf5afd6, committed Oct 1, 2026
- First version recorded
- Jul 12, 2026
- Size
- 9,477 bytes
- Repository stars
- 11
- License
- MIT
Predict genes and count tRNA and rRNA genes in assemblies. Use when calling CDS in prokaryotic, viral, or eukaryotic assemblies, or when an ncRNA census is needed before annotation.
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
# Bio Gene Calling
Call genes and annotate basic features for prokaryotes, viruses, and eukaryotes.
## Instructions
Tool guides and versions: [docs/README.md](docs/README.md).
1. Validate the assembly and tool manifests, then generate a per-assembly execution plan:
```bash
uv run --script skills/bio-gene-calling/scripts/run_gene_calling.py \
assemblies.tsv --tool-manifest tool-manifest.json \
--out results/bio-gene-calling --threads 8
# Inspect run_manifest.json, then execute or resume the same plan
# (inside an sbatch job on HPC; match --threads to --cpus-per-task):
uv run --script skills/bio-gene-calling/scripts/run_gene_calling.py \
assemblies.tsv --tool-manifest tool-manifest.json \
--out results/bio-gene-calling --threads 8 --execute
```
…Read the whole file at its exact version.
How to install
mdr add fmschulz/omics-skills/bio-gene-calling@sha256:e1c4e6646a1c97d7The line at the top of this page pins the label git:20261001.bf5afd6, 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_6ccl6j6qg37wju7t)
4 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 6 versions of this file, between Jul 12, 2026 and Oct 1, 2026, about one every 16 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20261001.bf5afd6 latest | 2026-10-01 | bf5afd6 | 9,477 B | A | view · diff |
| git:20260905.3e49039 | 2026-09-05 | 3e49039 | 8,016 B | A | view · diff |
| git:20260825.978bb0a | 2026-08-25 | 978bb0a | 7,800 B | A | view · diff |
| git:20260825.bd47e68 | 2026-08-25 | bd47e68 | 8,270 B | A | view · diff |
| git:20260713.88e759d | 2026-07-13 | 88e759d | 8,281 B | A | view · diff |
| git:20260712.3675171 | 2026-07-12 | 3675171 | 7,763 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 (9477 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
fmschulz/omics-skills · 11 stars · license MIT · pushed 2026-10-02 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_6ccl6j6qg37wju7t GET https://markdownregistry.com/api/v1/resolve?ref=fmschulz/omics-skills/bio-gene-calling GET https://markdownregistry.com/api/v1/blob/e1c4e6646a1c97d794d74a5d5c4383b9686684708548872ba08b26c6d1540f22
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.