Bio Batch Processing
GPTomics/bioSkills
Process many sequence files in batch (count, merge, split, convert, summarize) with memory-safe streaming and on-disk indexing using Biopython, pysam, or pyfastx.
ChIP-seq quality control metrics including FRiP (Fraction of Reads in Peaks), cross-correlation analysis (NSC/RSC), library complexity, and IDR (Irreproducibility Discovery Rate) for replicate…
Install Bio Chipseq Qc
$ npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-chipseq-qc -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills bio-chipseq-qc --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-chipseq-qc .claude/skills/bio-chipseq-qc && 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-chipseq-qc" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-chipseq-qc into .claude/skills/bio-chipseq-qc/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-chipseq-qc", 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-chipseq-qcType 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-chipseq-qc -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills bio-chipseq-qc --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-chipseq-qc .agents/skills/bio-chipseq-qc && 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-chipseq-qc" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-chipseq-qc into .agents/skills/bio-chipseq-qc/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-chipseq-qc", 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-chipseq-qc -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills bio-chipseq-qc --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-chipseq-qc .cursor/skills/bio-chipseq-qc && 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-chipseq-qc" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-chipseq-qc into .cursor/skills/bio-chipseq-qc/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-chipseq-qc", 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-chipseq-qc--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-chipseq-qc -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills bio-chipseq-qc --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-chipseq-qc .gemini/skills/bio-chipseq-qc && 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-chipseq-qc" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-chipseq-qc into .gemini/skills/bio-chipseq-qc/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-chipseq-qc", 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-chipseq-qcInstalls 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-chipseq-qc -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-chipseq-qc .github/skills/bio-chipseq-qc && 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-chipseq-qc" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-chipseq-qc into .github/skills/bio-chipseq-qc/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-chipseq-qc", 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-chipseq-qc -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-chipseq-qc --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-chipseq-qc .opencode/skills/bio-chipseq-qc && 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-chipseq-qc" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-chipseq-qc into .opencode/skills/bio-chipseq-qc/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-chipseq-qc", 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-chipseq-qc- GitHub stars
- 3.1k
- Token cost
- ~2.7k tokens
- SKILL.md length
- 494 words
- Files
- 5
- Skills in repo
- 279
- Repo updated
- First seen
- Licence
- None found
At a glance
ChIP-seq quality control metrics including FRiP (Fraction of Reads in Peaks), cross-correlation analysis (NSC/RSC), library complexity, and IDR (Irreproducibility Discovery Rate) for replicate…
- Assess experiment quality before downstream analysis
- SKILL.md covers Version Compatibility, FRiP (Fraction of Reads in…, Cross-Correlation Analysis… and Library Complexity (NRF, PBC1,…, plus 5 more sections
- Runs Shell and Python scripts from its folder; calls pip
- Assessing ChIP-seq data quality metrics
What it does
Bio Chipseq Qc is an agent skill from FreedomIntelligence/OpenClaw-Medical-Skills. ChIP-seq quality control metrics including FRiP (Fraction of Reads in Peaks), cross-correlation analysis (NSC/RSC), library complexity, and IDR (Irreproducibility Discovery Rate) for replicate concordance. Use to assess experiment quality before downstream analysis. Use when assessing ChIP-seq data quality metrics.
Its SKILL.md is about 2.7k tokens, which your agent loads only when the skill is triggered. The skill folder holds 5 other files (for example `examples/calculate_frip.sh`, `examples/chipseq_qc.py` and `examples/run_idr.sh`).
It sits in Data & Analytics, covering Bioinformatics and Data cleaning. It works with pysam. The repository describes itself as: The largest open-source medical AI skills library for OpenClaw🦞.
When your agent uses it
- Assess experiment quality before downstream analysis
- Assessing ChIP-seq data quality metrics
Example prompts
- “/bio-chipseq-qc”
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 and Python), 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 Chipseq Qc loads about 2.7k tokens when it runs. Until then it costs about 83 tokens; SKILL.md has 494 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 494 words (~2,740 tokens).
“Reference examples tested with: MACS3 3.0+, Subread 2.0+, bedtools 2.31+, deepTools 3.5+, pybedtools 0.9+, pysam 0.22+, samtools 1.19+”
- name
- bio-chipseq-qc
- tool_type
- mixed
- primary_tool
- deepTools
Files
SKILL.md and 4 other files in skills/bio-chipseq-qc of FreedomIntelligence/OpenClaw-Medical-Skills.
- SKILL.md
- examples/calculate_frip.sh
- examples/chipseq_qc.py
- examples/run_idr.sh
- usage-guide.md
Open the folder on GitHubat commit b1f9b6e
Compare with similar skills
Bio Chipseq Qc 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 Chipseq Qc this skillFreedomIntelligence/OpenClaw-Medical-Skills | 3.1k | — | ~2.7k | Automated safety check: Pass | None | |
| Bio Batch ProcessingGPTomics/bioSkills | 1.2k | 1 repos | ~3k | Automated safety check: Pass | MIT | |
| Bio Workflows Methylation PipelineGPTomics/bioSkills | 1.2k | 1 repos | ~3.7k | Automated safety check: Pass | MIT | |
| Bio Proteomics Differential AbundanceGPTomics/bioSkills | 1.2k | 1 repos | ~5.7k | Automated safety check: Pass | MIT | |
| Bioconductor HarmonizrbioMate-AI/biomate-bioconductor-kb | 804 | — | ~1.2k | Automated safety check: Pass | Custom licence | |
| Bio Alignment ValidationGPTomics/bioSkills | 1.2k | 2 repos | ~3.7k | Automated safety check: Pass | MIT |
Similar skills
Bio Workflows Methylation Pipeline
GPTomics/bioSkills
Orchestrates the end-to-end bisulfite/EM-seq methylation pipeline from FASTQ to differentially methylated regions, chaining Trim Galore/fastp QC, Bismark alignment + deduplication, methylation…
Bio Proteomics Differential Abundance
GPTomics/bioSkills
Tests for differentially abundant proteins between conditions with limma/DEqMS empirical-Bayes moderation, proDA/msqrob2/MSstats missingness modeling, and Python Welch+BH alternatives.
Bioconductor Harmonizr
bioMate-AI/biomate-bioconductor-kb
An implementation, which takes input data and makes it available for proper batch effect removal by ComBat or Limma.
Bio Alignment Validation
GPTomics/bioSkills
Validate alignment quality with insert size distribution, proper pairing rates, GC bias, strand balance, and other post-alignment metrics.
Bioconductor Matrixqcvis
bioMate-AI/biomate-bioconductor-kb
Data quality assessment is an integral part of preparatory data analysis to ensure sound biological information retrieval.
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Related
Works with
Categories
Questions about Bio Chipseq Qc
What does Bio Chipseq Qc do?
ChIP-seq quality control metrics including FRiP (Fraction of Reads in Peaks), cross-correlation analysis (NSC/RSC), library complexity, and IDR (Irreproducibility Discovery Rate) for replicate…. Bio Chipseq Qc is an agent skill from FreedomIntelligence/OpenClaw-Medical-Skills. ChIP-seq quality control metrics including FRiP (Fraction of Reads in Peaks), cross-correlation analysis (NSC/RSC), library complexity, and IDR (Irreproducibility Discovery Rate) for replicate concordance.
When should I use Bio Chipseq Qc?
Bio Chipseq Qc fits situations like: assess experiment quality before downstream analysis; assessing ChIP-seq data quality metrics.
How do I install Bio Chipseq Qc in Claude Code?
Run `npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-chipseq-qc -a claude-code`. Or copy the skill folder (skills/bio-chipseq-qc in FreedomIntelligence/OpenClaw-Medical-Skills) into .claude/skills/bio-chipseq-qc in your project. Claude Code loads it when a task matches its description.
How do I install Bio Chipseq Qc in Codex?
Run `npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-chipseq-qc -a codex`. Or copy the skill folder (skills/bio-chipseq-qc in FreedomIntelligence/OpenClaw-Medical-Skills) into .agents/skills/bio-chipseq-qc in your project. Codex loads it when a task matches its description.
Can I use Bio Chipseq Qc 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-chipseq-qc -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-chipseq-qc, .gemini/skills/bio-chipseq-qc, .github/skills/bio-chipseq-qc and .opencode/skills/bio-chipseq-qc in your project.
What does Bio Chipseq Qc need to run?
Going by SKILL.md and its folder, Bio Chipseq Qc needs a shell and Python 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 Chipseq Qc 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 Chipseq Qc 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 Chipseq Qc use?
No licence was found for Bio Chipseq Qc or its repository. Without one, default copyright applies: ask the author before reusing or redistributing it.
How many tokens does Bio Chipseq Qc use?
About 2.7k tokens (SKILL.md is roughly 11k 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 Chipseq Qc?
Skills that share tags, products or a category with Bio Chipseq Qc: Bio Batch Processing (GPTomics/bioSkills, 1.2k stars), Bio Workflows Methylation Pipeline (GPTomics/bioSkills, 1.2k stars), Bio Proteomics Differential Abundance (GPTomics/bioSkills, 1.2k stars) and Bioconductor Harmonizr (bioMate-AI/biomate-bioconductor-kb, 804 stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.
Who maintains Bio Chipseq Qc?
FreedomIntelligence (a GitHub organization) maintains it in FreedomIntelligence/OpenClaw-Medical-Skills, which has 3,052 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.