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Agent skill
Bio Hi C Analysis Contact Pairs
by FreedomIntelligence in FreedomIntelligence/OpenClaw-Medical-Skills
Process Hi-C read pairs using pairtools. An agent skill from FreedomIntelligence/OpenClaw-Medical-Skills.
Install Bio Hi C Analysis Contact Pairs
$ npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-hi-c-analysis-contact-pairs -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills bio-hi-c-analysis-contact-pairs --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-hi-c-analysis-contact-pairs .claude/skills/bio-hi-c-analysis-contact-pairs && 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-hi-c-analysis-contact-pairs" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-hi-c-analysis-contact-pairs into .claude/skills/bio-hi-c-analysis-contact-pairs/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-hi-c-analysis-contact-pairs", 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-hi-c-analysis-contact-pairsType 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-hi-c-analysis-contact-pairs -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills bio-hi-c-analysis-contact-pairs --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-hi-c-analysis-contact-pairs .agents/skills/bio-hi-c-analysis-contact-pairs && 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-hi-c-analysis-contact-pairs" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-hi-c-analysis-contact-pairs into .agents/skills/bio-hi-c-analysis-contact-pairs/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-hi-c-analysis-contact-pairs", 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-hi-c-analysis-contact-pairs -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills bio-hi-c-analysis-contact-pairs --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-hi-c-analysis-contact-pairs .cursor/skills/bio-hi-c-analysis-contact-pairs && 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-hi-c-analysis-contact-pairs" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-hi-c-analysis-contact-pairs into .cursor/skills/bio-hi-c-analysis-contact-pairs/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-hi-c-analysis-contact-pairs", 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-hi-c-analysis-contact-pairs--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-hi-c-analysis-contact-pairs -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills bio-hi-c-analysis-contact-pairs --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-hi-c-analysis-contact-pairs .gemini/skills/bio-hi-c-analysis-contact-pairs && 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-hi-c-analysis-contact-pairs" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-hi-c-analysis-contact-pairs into .gemini/skills/bio-hi-c-analysis-contact-pairs/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-hi-c-analysis-contact-pairs", 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-hi-c-analysis-contact-pairsInstalls 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-hi-c-analysis-contact-pairs -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-hi-c-analysis-contact-pairs .github/skills/bio-hi-c-analysis-contact-pairs && 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-hi-c-analysis-contact-pairs" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-hi-c-analysis-contact-pairs into .github/skills/bio-hi-c-analysis-contact-pairs/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-hi-c-analysis-contact-pairs", 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-hi-c-analysis-contact-pairs -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-hi-c-analysis-contact-pairs --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-hi-c-analysis-contact-pairs .opencode/skills/bio-hi-c-analysis-contact-pairs && 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-hi-c-analysis-contact-pairs" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-hi-c-analysis-contact-pairs into .opencode/skills/bio-hi-c-analysis-contact-pairs/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-hi-c-analysis-contact-pairs", 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
bio-hi-c-analysis-contact-pairs- GitHub stars
- 3.1k
- Used in
- 1 other repo
- Token cost
- ~1.6k tokens
- SKILL.md length
- 214 words
- Files
- 3
- Skills in repo
- 279
- Repo updated
- First seen
- Licence
- None found
At a glance
Process Hi-C read pairs using pairtools. An agent skill from FreedomIntelligence/OpenClaw-Medical-Skills.
- Processing raw Hi-C read pairs
- SKILL.md covers Version Compatibility, Pairtools Workflow Overview, Parse Alignments to Pairs and Sort Pairs, plus 14 more sections
- Runs Shell scripts from its folder; calls pip
- Tasks that involve Statistics
What it does
Bio Hi C Analysis Contact Pairs is an agent skill from FreedomIntelligence/OpenClaw-Medical-Skills. Process Hi-C read pairs using pairtools. Parse alignments, filter duplicates, classify pairs, and generate contact statistics from Hi-C sequencing data. Use when processing raw Hi-C read pairs.
Its SKILL.md is about 1.6k tokens, which your agent loads only when the skill is triggered. The skill folder holds 3 other files (for example `examples/process_pairs.sh` and `usage-guide.md`).
It sits in Data & Analytics, covering Statistics. The repository describes itself as: The largest open-source medical AI skills library for OpenClaw🦞.
When your agent uses it
- Processing raw Hi-C read pairs
- Tasks that involve Statistics
Example prompts
- “/bio-hi-c-analysis-contact-pairs”
Requirements
- Python 3
- A Bash shell
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 (Shell), which the agent can run.
Shell commands in SKILL.md call:
pip
From the folder's file list and the shell code blocks in SKILL.md.
Network
No URLs in SKILL.md. Its commands use pip, which can reach the network depending on how they are called.
From URLs in SKILL.md, links to its own repository left out.
Credentials
Names no API keys, tokens, secrets or passwords.
From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.
Context cost
Bio Hi C Analysis Contact Pairs loads about 1.6k tokens when it runs. Until then it costs about 56 tokens; SKILL.md has 214 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 passed
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.
SKILL.md
Without a licence we can't republish the file, so here is its outline and opening line. It has 214 words (~1,609 tokens).
“Reference examples tested with: cooler 0.9+, pairtools 1.1+, pandas 2.2+”
- name
- bio-hi-c-analysis-contact-pairs
- tool_type
- cli
- primary_tool
- pairtools
Files
SKILL.md and 2 other files in skills/bio-hi-c-analysis-contact-pairs of FreedomIntelligence/OpenClaw-Medical-Skills.
- SKILL.md
- examples/process_pairs.sh
- usage-guide.md
Open the folder on GitHubat commit b1f9b6e
Used in 1 other repository
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 7, 2026.
Compare with similar skills
Bio Hi C Analysis Contact Pairs 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 Hi C Analysis Contact Pairs this skillFreedomIntelligence/OpenClaw-Medical-Skills | 3.1k | 1 repos | ~1.6k | Automated safety check: Pass | None | |
| Sandbox Benchvercel/next.js | 143k | — | ~4.1k | Automated safety check: Pass | MIT | |
| Statistical Analysisspacering-net/codeg | 3.9k | 3 repos | ~5k | Automated safety check: Pass | MIT | |
| StatsmodelszLanqing/codex-claude-academic-skills | 4.7k | 15 repos | ~4.9k | Automated safety check: Pass | BSD-3-Clause | |
| AI Daily DigestvigorX777/ai-daily-digest | 1.6k | — | ~1.3k | Automated safety check: Pass | None | |
| Statistical Powerspacering-net/codeg | 3.9k | 1 repos | ~3.6k | Automated safety check: Notes | MIT |
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Categories
Questions about Bio Hi C Analysis Contact Pairs
What does Bio Hi C Analysis Contact Pairs do?
Process Hi-C read pairs using pairtools. An agent skill from FreedomIntelligence/OpenClaw-Medical-Skills. Bio Hi C Analysis Contact Pairs is an agent skill from FreedomIntelligence/OpenClaw-Medical-Skills. Process Hi-C read pairs using pairtools.
When should I use Bio Hi C Analysis Contact Pairs?
Bio Hi C Analysis Contact Pairs fits situations like: processing raw Hi-C read pairs; tasks that involve Statistics.
How do I install Bio Hi C Analysis Contact Pairs in Claude Code?
Run `npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-hi-c-analysis-contact-pairs -a claude-code`. Or copy the skill folder (skills/bio-hi-c-analysis-contact-pairs in FreedomIntelligence/OpenClaw-Medical-Skills) into .claude/skills/bio-hi-c-analysis-contact-pairs in your project. Claude Code loads it when a task matches its description.
How do I install Bio Hi C Analysis Contact Pairs in Codex?
Run `npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-hi-c-analysis-contact-pairs -a codex`. Or copy the skill folder (skills/bio-hi-c-analysis-contact-pairs in FreedomIntelligence/OpenClaw-Medical-Skills) into .agents/skills/bio-hi-c-analysis-contact-pairs in your project. Codex loads it when a task matches its description.
Can I use Bio Hi C Analysis Contact Pairs 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 bio-hi-c-analysis-contact-pairs -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-hi-c-analysis-contact-pairs, .gemini/skills/bio-hi-c-analysis-contact-pairs, .github/skills/bio-hi-c-analysis-contact-pairs and .opencode/skills/bio-hi-c-analysis-contact-pairs in your project.
What does Bio Hi C Analysis Contact Pairs need to run?
Going by SKILL.md and its folder, Bio Hi C Analysis Contact Pairs needs a shell for the scripts in its folder and the command-line tools its instructions call (pip). Our summary lists: Python 3; A Bash shell.
Does Bio Hi C Analysis Contact Pairs access the network?
SKILL.md contains no URLs. Its commands use pip, which can reach the network depending on how they are called. This is read from the text; nothing was executed.
Is Bio Hi C Analysis Contact Pairs safe to install?
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.
What licence does Bio Hi C Analysis Contact Pairs use?
No licence was found for Bio Hi C Analysis Contact Pairs or its repository. Without one, default copyright applies: ask the author before reusing or redistributing it.
How many tokens does Bio Hi C Analysis Contact Pairs use?
About 1.6k tokens (SKILL.md is roughly 6.4k 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 Bio Hi C Analysis Contact Pairs?
Skills that share tags, products or a category with Bio Hi C Analysis Contact Pairs: Sandbox Bench (vercel/next.js, 143k stars), Statistical Analysis (spacering-net/codeg, 3.9k stars), Statsmodels (zLanqing/codex-claude-academic-skills, 4.7k stars) and AI Daily Digest (vigorX777/ai-daily-digest, 1.6k stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.
Who maintains Bio Hi C Analysis Contact Pairs?
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.