Agent skill
by FreedomIntelligence in FreedomIntelligence/OpenClaw-Medical-Skills
Taxonomic classification of ASVs using reference databases like SILVA, GTDB, or UNITE.
$ npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-microbiome-taxonomy-assignment -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills bio-microbiome-taxonomy-assignment --agent claude-codeProject scope by default; add --scope user for a personal install. Needs GitHub CLI 2.90.0 or later (public preview).
$ git clone --depth 1 https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills.git skills-src && mkdir -p .claude/skills && cp -r skills-src/skills/bio-microbiome-taxonomy-assignment .claude/skills/bio-microbiome-taxonomy-assignment && rm -rf skills-srcUse ~/.claude/skills/ instead of .claude/skills for a personal install. The folder must contain SKILL.md.
Claude Code skills documentation · loads skills from .claude/skills/
Install the "bio-microbiome-taxonomy-assignment" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-microbiome-taxonomy-assignment into .claude/skills/bio-microbiome-taxonomy-assignment/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-microbiome-taxonomy-assignment", then confirm the skill loads.Claude Code copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$skill-installer install https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-microbiome-taxonomy-assignmentType this inside Codex. $skill-installer <name> installs a curated skill from openai/skills. The installer writes to $CODEX_HOME/skills (default ~/.codex/skills). Restart Codex if the skill does not show up.
$ npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-microbiome-taxonomy-assignment -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills bio-microbiome-taxonomy-assignment --agent codexProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills.git skills-src && mkdir -p .agents/skills && cp -r skills-src/skills/bio-microbiome-taxonomy-assignment .agents/skills/bio-microbiome-taxonomy-assignment && rm -rf skills-srcUse ~/.agents/skills/ instead of .agents/skills for a personal install.
Codex skills documentation · loads skills from .agents/skills/
Install the "bio-microbiome-taxonomy-assignment" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-microbiome-taxonomy-assignment into .agents/skills/bio-microbiome-taxonomy-assignment/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-microbiome-taxonomy-assignment", then confirm the skill loads.Codex copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-microbiome-taxonomy-assignment -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills bio-microbiome-taxonomy-assignment --agent cursorProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills.git skills-src && mkdir -p .cursor/skills && cp -r skills-src/skills/bio-microbiome-taxonomy-assignment .cursor/skills/bio-microbiome-taxonomy-assignment && rm -rf skills-srcUse ~/.cursor/skills/ instead of .cursor/skills for a personal install.
Cursor skills documentation · loads skills from .cursor/skills/, .agents/skills/, .claude/skills/, .codex/skills/
Install the "bio-microbiome-taxonomy-assignment" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-microbiome-taxonomy-assignment into .cursor/skills/bio-microbiome-taxonomy-assignment/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-microbiome-taxonomy-assignment", then confirm the skill loads.Cursor copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ gemini skills install https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills.git --path skills/bio-microbiome-taxonomy-assignment--scope user (default) or --scope workspace; --path is the subfolder of the repo that holds the skill; --consent skips the security confirmation prompt.
$ npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-microbiome-taxonomy-assignment -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills bio-microbiome-taxonomy-assignment --agent gemini-cliProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills.git skills-src && mkdir -p .gemini/skills && cp -r skills-src/skills/bio-microbiome-taxonomy-assignment .gemini/skills/bio-microbiome-taxonomy-assignment && rm -rf skills-srcUse ~/.gemini/skills/ instead of .gemini/skills for a personal install, then run /skills reload.
Gemini CLI skills documentation · loads skills from .gemini/skills/, .agents/skills/
Install the "bio-microbiome-taxonomy-assignment" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-microbiome-taxonomy-assignment into .gemini/skills/bio-microbiome-taxonomy-assignment/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-microbiome-taxonomy-assignment", then confirm the skill loads.Gemini CLI copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills bio-microbiome-taxonomy-assignmentInstalls for Copilot at project scope by default; add --scope user for a personal install. Preview a skill first with gh skill preview. Needs GitHub CLI 2.90.0 or later (public preview).
$ npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-microbiome-taxonomy-assignment -a github-copilotProject install goes to .agents/skills/; add -g for ~/.copilot/skills/.
$ git clone --depth 1 https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills.git skills-src && mkdir -p .github/skills && cp -r skills-src/skills/bio-microbiome-taxonomy-assignment .github/skills/bio-microbiome-taxonomy-assignment && rm -rf skills-srcUse ~/.copilot/skills/ instead of .github/skills for a personal install. Commit .github/skills so cloud agent and code review can use it.
GitHub Copilot skills documentation · loads skills from .github/skills/, .claude/skills/, .agents/skills/
Install the "bio-microbiome-taxonomy-assignment" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-microbiome-taxonomy-assignment into .github/skills/bio-microbiome-taxonomy-assignment/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-microbiome-taxonomy-assignment", then confirm the skill loads.GitHub Copilot copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-microbiome-taxonomy-assignment -a opencodeOpenCode documents no install command of its own. Project install goes to .agents/skills/; add -g for ~/.config/opencode/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills bio-microbiome-taxonomy-assignment --agent opencodeProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills.git skills-src && mkdir -p .opencode/skills && cp -r skills-src/skills/bio-microbiome-taxonomy-assignment .opencode/skills/bio-microbiome-taxonomy-assignment && rm -rf skills-srcUse ~/.config/opencode/skills/ instead of .opencode/skills for a personal install.
OpenCode skills documentation · loads skills from .opencode/skills/, .claude/skills/, .agents/skills/
Install the "bio-microbiome-taxonomy-assignment" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-microbiome-taxonomy-assignment into .opencode/skills/bio-microbiome-taxonomy-assignment/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-microbiome-taxonomy-assignment", then confirm the skill loads.OpenCode copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
bio-microbiome-taxonomy-assignmentTaxonomic classification of ASVs using reference databases like SILVA, GTDB, or UNITE.
Bio Microbiome Taxonomy Assignment is an agent skill from FreedomIntelligence/OpenClaw-Medical-Skills. Taxonomic classification of ASVs using reference databases like SILVA, GTDB, or UNITE. Covers naive Bayes classifiers (DADA2, IDTAXA) and exact matching approaches. Use when assigning taxonomy to ASVs after DADA2 amplicon processing.
Its SKILL.md is about 1.3k tokens, which your agent loads only when the skill is triggered. The skill folder holds 3 other files (for example `usage-guide.md`).
The repository describes itself as: The largest open-source medical AI skills library for OpenClaw🦞.
Read from SKILL.md and the folder at commit b1f9b6e. It shows what the files ask for, not the result of running them.
Pre-approves nothing: there is no allowed-tools line, so your agent's usual permission prompts apply.
From allowed-tools in the SKILL.md frontmatter.
Ships script files (R), which the agent can run.
From the folder's file list and the shell code blocks in SKILL.md.
Hosts in commands or code, which the agent is likely to contact:
zenodo.orgwww2.decipher.codesFrom URLs in SKILL.md, links to its own repository left out.
Names no API keys, tokens, secrets or passwords.
From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.
Bio Microbiome Taxonomy Assignment loads about 1.3k tokens when it runs. Until then it costs about 67 tokens; SKILL.md has 232 words of instructions outside code blocks.
Estimates: characters ÷ 4, the usual rule of thumb; real counts depend on the model's tokenizer. Scripts and assets cost tokens only if the agent reads them.
The automated check found no risky patterns in SKILL.md.
Automated static check — not a guarantee. Review scripts before installing. It scans the text of SKILL.md for risky patterns (piping downloads into a shell, reading credential files, hidden Unicode, destructive commands); files beside SKILL.md are not scanned.
Without a licence we can't republish the file, so here is its outline and opening line. It has 232 words (~1,333 tokens).
“Reference examples tested with: DADA2 1.30+, QIIME2 2024.2+, phyloseq 1.46+, scanpy 1.10+, scikit-learn 1.4+”
SKILL.md and 2 other files in skills/bio-microbiome-taxonomy-assignment of FreedomIntelligence/OpenClaw-Medical-Skills.
Open the folder on GitHubat commit b1f9b6e
We found 1 copy of this SKILL.md (exact, near-identical or edited) in other folders, from 1 other GitHub owner. This page covers the copy in FreedomIntelligence/OpenClaw-Medical-Skills, which our catalogue first saw on October 9, 2026.
Bio Microbiome Taxonomy Assignment next to the 5 skills that share the most tags, products or categories with it. Stars are the repository's; “used in” counts other GitHub owners with a copy.
| Skill | Stars | Used in | Tokens | Auto-check | Licence | Repo updated |
|---|---|---|---|---|---|---|
| Bio Microbiome Taxonomy Assignment this skillFreedomIntelligence/OpenClaw-Medical-Skills | 3.1k | 1 repos | ~1.3k | Automated safety check: Pass | None | |
| Bio Microbiome Taxonomy AssignmentGPTomics/bioSkills | 1.2k | 1 repos | ~6.1k | Automated safety check: Pass | MIT | |
| Cv Classificationaiming-lab/AutoResearchClaw | 15k | — | ~304 | Automated safety check: Pass | MIT | |
| GitHub Issue Bulk Assignercodewhale-hq/Codewhale | 41k | — | ~953 | Automated safety check: Pass | MIT | |
| Testing API For Mass Assignment Vulnerabilitymukul975/Anthropic-Cybersecurity-Skills | 34k | — | ~4k | Automated safety check: Pass | Apache-2.0 | |
| Text Classificationbrycewang-stanford/Auto-Empirical-Research-Skills | 4.6k | — | ~4.8k | Automated safety check: Pass | Custom licence |
GPTomics/bioSkills
Assigns taxonomy to amplicon ASVs/OTUs (16S, ITS, 18S) with a classifier conditioned on a reference database and primer region - DADA2 assignTaxonomy + addSpecies (RDP naive Bayes), DECIPHER IDTAXA…
aiming-lab/AutoResearchClaw
Best practices for image classification tasks. An agent skill from aiming-lab/AutoResearchClaw.
codewhale-hq/Codewhale
Moves a list of GitHub issues into a milestone or assigns them to owners with the gh CLI, checking each one before and after the change.
mukul975/Anthropic-Cybersecurity-Skills
Tests APIs for mass assignment (auto-binding), OWASP API3:2023, by identifying writable endpoints, adding undocumented fields to request bodies (role, isAdmin, price, balance), and checking whether…
brycewang-stanford/Auto-Empirical-Research-Skills
LLM-based text classification: codebook, validation, agreement statistics.
brycewang-stanford/Awesome-Journal-Skills
A skill your agent uses when assigning JEL classification codes to a Journal of Economic Literature (JEL) survey and relating the survey to the JEL code taxonomy that the journal itself maintains.
FreedomIntelligence/OpenClaw-Medical-Skills
Performs quality control on single-cell RNA-seq data (.h5ad or .h5 files) using scverse best practices with MAD-based filtering and comprehensive visualizations.
FreedomIntelligence/OpenClaw-Medical-Skills
Select and apply numerical differentiation schemes for PDE/ODE discretization.
FreedomIntelligence/OpenClaw-Medical-Skills
FHIR API development guide for building healthcare endpoints.
FreedomIntelligence/OpenClaw-Medical-Skills
Select and configure linear solvers for systems Ax=b in dense and sparse problems.
FreedomIntelligence/OpenClaw-Medical-Skills
Query 14+ biomedical databases for drug repurposing, target discovery, clinical trials, and literature research.
FreedomIntelligence/OpenClaw-Medical-Skills
Plan and evaluate mesh generation for numerical simulations.
Taxonomic classification of ASVs using reference databases like SILVA, GTDB, or UNITE. Bio Microbiome Taxonomy Assignment is an agent skill from FreedomIntelligence/OpenClaw-Medical-Skills. Taxonomic classification of ASVs using reference databases like SILVA, GTDB, or UNITE.
Bio Microbiome Taxonomy Assignment fits situations like: assigning taxonomy to ASVs after DADA2 amplicon processing.
Run `npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-microbiome-taxonomy-assignment -a claude-code`. Or copy the skill folder (skills/bio-microbiome-taxonomy-assignment in FreedomIntelligence/OpenClaw-Medical-Skills) into .claude/skills/bio-microbiome-taxonomy-assignment in your project. Claude Code loads it when a task matches its description.
Run `npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-microbiome-taxonomy-assignment -a codex`. Or copy the skill folder (skills/bio-microbiome-taxonomy-assignment in FreedomIntelligence/OpenClaw-Medical-Skills) into .agents/skills/bio-microbiome-taxonomy-assignment in your project. Codex loads it when a task matches its description.
Cursor, Gemini CLI, GitHub Copilot and OpenCode also load SKILL.md folders. With the skills CLI, run `npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-microbiome-taxonomy-assignment -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/bio-microbiome-taxonomy-assignment, .gemini/skills/bio-microbiome-taxonomy-assignment, .github/skills/bio-microbiome-taxonomy-assignment and .opencode/skills/bio-microbiome-taxonomy-assignment in your project.
Going by SKILL.md and its folder, Bio Microbiome Taxonomy Assignment needs R for the scripts in its folder.
SKILL.md names 2 domains. In commands or code: zenodo.org and www2.decipher.codes; the agent is likely to contact these when it follows the instructions. This is read from the text; nothing was executed.
Our automated static check of SKILL.md found no risky patterns, such as piping downloads into a shell, reading credential files or hidden Unicode. It is not a guarantee. Review the folder before installing.
No licence was found for Bio Microbiome Taxonomy Assignment or its repository. Without one, default copyright applies: ask the author before reusing or redistributing it.
About 1.3k tokens (SKILL.md is roughly 5.3k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full.
Skills that share tags, products or a category with Bio Microbiome Taxonomy Assignment: Bio Microbiome Taxonomy Assignment (GPTomics/bioSkills, 1.2k stars), Cv Classification (aiming-lab/AutoResearchClaw, 15k stars), GitHub Issue Bulk Assigner (codewhale-hq/Codewhale, 41k stars) and Testing API For Mass Assignment Vulnerability (mukul975/Anthropic-Cybersecurity-Skills, 34k stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.
FreedomIntelligence (a GitHub organization) maintains it in FreedomIntelligence/OpenClaw-Medical-Skills, which has 3,053 GitHub stars. The repository holds 279 skills in this directory. The repository was last updated on July 21, 2026.
Source: FreedomIntelligence/OpenClaw-Medical-Skills on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.
