bioservices SKILL.md skillA
bioservices from k-dense-ai/scientific-agent-skills is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add k-dense-ai/scientific-agent-skills/bioservices@v1.7Pins v1.7 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- k-dense-ai/scientific-agent-skills
- Path
skills/bioservices/SKILL.md- Versions recorded
- 8
- Latest version
- v1.7, committed Oct 1, 2026
- First version recorded
- Jun 11, 2026
- Size
- 11,946 bytes
- Repository stars
- 53,159
- License
- MIT
Provides a Python interface to bioinformatics services including UniProt, KEGG, ChEMBL, Reactome, QuickGO, and UniChem. Used for cross-database protein annotation, pathway retrieval, chemical identifier mapping, and integrated biological data workflows with BioServices.
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
# BioServices ## When to use Use BioServices when combining protein annotation, gene/pathway membership, compound cross-references, or genomic resources in Python. Its service clients share transport helpers, but their request parameters and return types differ. Use [the service reference](references/services_reference.md) before composing clients; method names from PubChemPy, mygene, or older BioServices are not portable. Targets **bioservices 1.16.0**, the current PyPI release at review. Package metadata allows Python >=3.9,<4; the bundled tests were run in an isolated Python 3.13 environment. The previous 3.12 upper bound was not a package requirement. ```bash uv pip install "bioservices==1.16.0" ``` ## Workflow 1. Resolve the requested organism and entity to stable accessions. Review search hits before selecting one; gene symbols and compound names may be ambiguous. 2. Inspect the service's actual response type, including pagination and errors. BioServices can return an integer-like HTTP error or `None`, not only raise. 3. Preserve one-to-many mappings, failed identifiers, taxonomy, database release, query parameters, and retrieval date alongside derived tables. …
Read the whole file at its exact version.
How to install
mdr add k-dense-ai/scientific-agent-skills/bioservices@sha256:9edc884f0fe216d5The line at the top of this page pins the label v1.7, 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_5fyemf7jtcgtsyvs)
5 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 8 versions of this file, between Jun 11, 2026 and Oct 1, 2026, about one every 16 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| v1.7 latest | 2026-10-01 | a92663a | 11,946 B | A | view · diff |
| v1.6 | 2026-09-30 | a0aea74 | 13,348 B | A | view · diff |
| v1.5 | 2026-09-30 | ce9e6e9 | 13,348 B | A | view · diff |
| v1.4 | 2026-09-02 | 1e5eeff | 13,117 B | A | view · diff |
| v1.3 | 2026-07-28 | 4fb7e0b | 12,160 B | A | view · diff |
| v1.2 | 2026-07-26 | b085e11 | 11,593 B | A | view · diff |
| git:20260611.c1150bd | 2026-06-11 | c1150bd | 11,743 B | A | view · diff |
| git:20260611.fe3f715 | 2026-06-11 | fe3f715 | 11,597 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 (11946 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
k-dense-ai/scientific-agent-skills · 53,159 stars · license MIT · pushed 2026-10-19 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_5fyemf7jtcgtsyvs GET https://markdownregistry.com/api/v1/resolve?ref=k-dense-ai/scientific-agent-skills/bioservices GET https://markdownregistry.com/api/v1/blob/9edc884f0fe216d510417d565ae74cc61608824b52eeb53ed0cdea3dcda5bda3
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.
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