String Protein Interaction Analysis With Omicverse
majiayu000/claude-skill-registry
Help Claude query STRING for protein interactions, build PPI graphs with pyPPI, and render styled network figures for bulk gene lists.
Agent skill
Protein Interaction Network Analysis
by FreedomIntelligence in FreedomIntelligence/OpenClaw-Medical-Skills
Analyze protein-protein interaction networks using STRING, BioGRID, and SASBDB databases.
No licenceAuto-check: notes
Install Protein Interaction Network Analysis
$ npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill protein-interaction-network-analysis -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills protein-interaction-network-analysis --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/tooluniverse-protein-interactions .claude/skills/protein-interaction-network-analysis && 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 "protein-interaction-network-analysis" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/tooluniverse-protein-interactions into .claude/skills/protein-interaction-network-analysis/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "protein-interaction-network-analysis", 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/tooluniverse-protein-interactionsType 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 protein-interaction-network-analysis -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills protein-interaction-network-analysis --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/tooluniverse-protein-interactions .agents/skills/protein-interaction-network-analysis && rm -rf skills-srcUse ~/.agents/skills/ instead of .agents/skills for a personal install.
Codex skills documentation · loads skills from .agents/skills/
Install the "protein-interaction-network-analysis" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/tooluniverse-protein-interactions into .agents/skills/protein-interaction-network-analysis/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "protein-interaction-network-analysis", 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 protein-interaction-network-analysis -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills protein-interaction-network-analysis --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/tooluniverse-protein-interactions .cursor/skills/protein-interaction-network-analysis && 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 "protein-interaction-network-analysis" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/tooluniverse-protein-interactions into .cursor/skills/protein-interaction-network-analysis/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "protein-interaction-network-analysis", 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/tooluniverse-protein-interactions--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 protein-interaction-network-analysis -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills protein-interaction-network-analysis --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/tooluniverse-protein-interactions .gemini/skills/protein-interaction-network-analysis && 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 "protein-interaction-network-analysis" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/tooluniverse-protein-interactions into .gemini/skills/protein-interaction-network-analysis/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "protein-interaction-network-analysis", 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 protein-interaction-network-analysisInstalls 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 protein-interaction-network-analysis -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/tooluniverse-protein-interactions .github/skills/protein-interaction-network-analysis && 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 "protein-interaction-network-analysis" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/tooluniverse-protein-interactions into .github/skills/protein-interaction-network-analysis/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "protein-interaction-network-analysis", 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 protein-interaction-network-analysis -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 protein-interaction-network-analysis --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/tooluniverse-protein-interactions .opencode/skills/protein-interaction-network-analysis && 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 "protein-interaction-network-analysis" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/tooluniverse-protein-interactions into .opencode/skills/protein-interaction-network-analysis/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "protein-interaction-network-analysis", 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.
Facts
- Skill name
protein-interaction-network-analysis- GitHub stars
- 3.1k
- Used in
- 2 other repos
- Token cost
- ~3.7k tokens
- SKILL.md length
- 667 words
- Files
- 15
- Skills in repo
- 170
- Repo updated
- First seen
- Licence
- None found
At a glance
Analyze protein-protein interaction networks using STRING, BioGRID, and SASBDB databases.
- Works in 9 steps: Single Protein Analysis → Protein Complex Validation → Pathway Discovery → …
- Analyzing protein networks
- SKILL.md covers Features, Databases Used, Quick Start and Use Cases, plus 5 more sections
- Runs Python scripts from its folder; calls pip and python; needs BIOGRID_API_KEY
What it does
Protein Interaction Network Analysis is an agent skill from FreedomIntelligence/OpenClaw-Medical-Skills. Analyze protein-protein interaction networks using STRING, BioGRID, and SASBDB databases. Maps protein identifiers, retrieves interaction networks with confidence scores, performs functional enrichment analysis (GO/KEGG/Reactome), and optionally includes structural data. No API key required for core functionality (STRING). Use when analyzing protein networks, discovering interaction partners, identifying functional modules, or studying protein complexes.
Its SKILL.md is about 3.7k tokens, which your agent loads only when the skill is triggered. The skill folder holds 14 other files (for example `DESCRIPTION_UPDATE_COMPLETE.md`, `DESCRIPTION_UPDATE_PROGRESS.md` and `DOMAIN_ANALYSIS.md`).
The repository describes itself as: The largest open-source medical AI skills library for OpenClaw🦞.
When your agent uses it
- Analyzing protein networks
- Discovering interaction partners
- Identifying functional modules
- Studying protein complexes
Example prompts
- “/protein-interaction-network-analysis”
Requirements
- Python 3
- A credential in BIOGRID_API_KEY
Workflow steps
9 steps, taken from the step headings in SKILL.md.
- Single Protein Analysis
- Protein Complex Validation
- Pathway Discovery
- Multi-Protein Network Analysis
- With BioGRID Validation
- Including Structural Data
- ToolUniverse Verbose Output
- BioGRID Requires API Key
- SASBDB May Have API Issues
What it can do on your machine
Read from SKILL.md and the folder at commit b1f9b6e. It shows what the files ask for, not the result of running them.
Tool permissions
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.
Runs code
Ships script files (Python), which the agent can run.
Shell commands in SKILL.md call:
pippython
From the folder's file list and the shell code blocks in SKILL.md.
Network
Links to these hosts (documentation or services it may open):
webservice.thebiogrid.orgstring-db.orgthebiogrid.orgsasbdb.orggithub.com
From URLs in SKILL.md, links to its own repository left out.
Credentials
Names these keys or tokens, usually read from environment variables:
BIOGRID_API_KEY
From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.
Context cost
Protein Interaction Network Analysis loads about 3.7k tokens when it runs. Until then it costs about 124 tokens; SKILL.md has 667 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.
Safety
Auto-check: notes
The automated check noted patterns worth knowing about, such as sudo or a known installer.
- NoteMentions a .env fileSKILL.md:339
2. Add to `.env` file:
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.
SKILL.md
Without a licence we can't republish the file, so here is its outline and opening line. It has 667 words (~3,741 tokens).
“Comprehensive protein interaction network analysis using ToolUniverse tools. Analyzes protein networks through a 4-phase workflow: identifier mapping, network retrieval, enrichment analysis, and optional structural data.”
- name
- protein-interaction-network-analysis
Files
SKILL.md and 14 other files in skills/tooluniverse-protein-interactions of FreedomIntelligence/OpenClaw-Medical-Skills.
- SKILL.md
- .env.template
- DESCRIPTION_UPDATE_COMPLETE.md
- DESCRIPTION_UPDATE_PROGRESS.md
- DOMAIN_ANALYSIS.md
- KNOWN_ISSUES.md
- PHASE2_COMPLETE.md
- PHASE2_DISCOVERIES.md
- PHASE4_IMPLEMENTATION_COMPLETE.md
- PHASE5_DOCUMENTATION_COMPLETE.md
- QUICK_START.md
- TOOL_DESCRIPTION_OPTIMIZATION.md
- python_implementation.py
- test_protein_tools.py
- test_skill_comprehensive.py
Open the folder on GitHubat commit b1f9b6e
Used in 2 other repositories
We found 2 copies of this SKILL.md (exact, near-identical or edited) in other folders, from 2 other GitHub owners. This page covers the copy in FreedomIntelligence/OpenClaw-Medical-Skills, which our catalogue first saw on October 7, 2026.
Compare with similar skills
Protein Interaction Network Analysis 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 |
|---|---|---|---|---|---|---|
| Protein Interaction Network Analysis this skillFreedomIntelligence/OpenClaw-Medical-Skills | 3.1k | 2 repos | ~3.7k | Automated safety check: Notes | None | |
| String Protein Interaction Analysis With Omicversemajiayu000/claude-skill-registry | 666 | 2 repos | ~749 | Automated safety check: Pass | MIT | |
| String Databasedavila7/claude-code-templates | 32k | 11 repos | ~4.5k | Automated safety check: Pass | MIT | |
| Linux NetworkingRightNow-AI/openfang | 18k | — | ~882 | Automated safety check: Pass | Apache-2.0 | |
| Performing Ot Network Security Assessmentmukul975/Anthropic-Cybersecurity-Skills | 34k | — | ~6.1k | Automated safety check: Pass | Apache-2.0 | |
| String Databaseaipoch/medical-research-skills | 2k | — | ~928 | Automated safety check: Pass | MIT |
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String Database
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Questions about Protein Interaction Network Analysis
What does Protein Interaction Network Analysis do?
Analyze protein-protein interaction networks using STRING, BioGRID, and SASBDB databases. Protein Interaction Network Analysis is an agent skill from FreedomIntelligence/OpenClaw-Medical-Skills. Analyze protein-protein interaction networks using STRING, BioGRID, and SASBDB databases.
When should I use Protein Interaction Network Analysis?
Protein Interaction Network Analysis fits situations like: analyzing protein networks; discovering interaction partners; identifying functional modules; studying protein complexes.
How do I install Protein Interaction Network Analysis in Claude Code?
Run `npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill protein-interaction-network-analysis -a claude-code`. Or copy the skill folder (skills/tooluniverse-protein-interactions in FreedomIntelligence/OpenClaw-Medical-Skills) into .claude/skills/protein-interaction-network-analysis in your project. Claude Code loads it when a task matches its description.
How do I install Protein Interaction Network Analysis in Codex?
Run `npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill protein-interaction-network-analysis -a codex`. Or copy the skill folder (skills/tooluniverse-protein-interactions in FreedomIntelligence/OpenClaw-Medical-Skills) into .agents/skills/protein-interaction-network-analysis in your project. Codex loads it when a task matches its description.
Can I use Protein Interaction Network Analysis in Cursor, Gemini CLI or GitHub Copilot?
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 protein-interaction-network-analysis -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/protein-interaction-network-analysis, .gemini/skills/protein-interaction-network-analysis, .github/skills/protein-interaction-network-analysis and .opencode/skills/protein-interaction-network-analysis in your project.
What does Protein Interaction Network Analysis need to run?
Going by SKILL.md and its folder, Protein Interaction Network Analysis needs Python for the scripts in its folder, the command-line tools its instructions call (pip and python) and credentials named BIOGRID_API_KEY. Our summary lists: Python 3; A credential in BIOGRID_API_KEY.
Does Protein Interaction Network Analysis access the network?
SKILL.md names 5 domains. As links in the text: webservice.thebiogrid.org, string-db.org, thebiogrid.org, sasbdb.org and github.com. This is read from the text; nothing was executed.
Is Protein Interaction Network Analysis safe to install?
Our automated static check of SKILL.md found notes only (mentions a .env file), nothing it rates as a warning. It is not a guarantee. Review the folder before installing.
What licence does Protein Interaction Network Analysis use?
No licence was found for Protein Interaction Network Analysis or its repository. Without one, default copyright applies: ask the author before reusing or redistributing it.
How many tokens does Protein Interaction Network Analysis use?
About 3.7k tokens (SKILL.md is roughly 15k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full.
What are the alternatives to Protein Interaction Network Analysis?
Skills that share tags, products or a category with Protein Interaction Network Analysis: String Protein Interaction Analysis With Omicverse (majiayu000/claude-skill-registry, 666 stars), String Database (davila7/claude-code-templates, 32k stars), Linux Networking (RightNow-AI/openfang, 18k stars) and Performing Ot Network Security Assessment (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.
Who maintains Protein Interaction Network Analysis?
FreedomIntelligence (a GitHub organization) maintains it in FreedomIntelligence/OpenClaw-Medical-Skills, which has 3,052 GitHub stars. The repository holds 170 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.