Bio Atac Seq Footprinting
GPTomics/bioSkills
Detect transcription factor binding footprints in ATAC-seq using TOBIAS, HINT-ATAC, Wellington, or scprinter.
Agent skill
Bio Atac Seq Footprinting
by FreedomIntelligence in FreedomIntelligence/OpenClaw-Medical-Skills
Detect transcription factor binding sites through footprinting analysis in ATAC-seq data using TOBIAS.
Install Bio Atac Seq Footprinting
$ npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-atac-seq-footprinting -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills bio-atac-seq-footprinting --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-atac-seq-footprinting .claude/skills/bio-atac-seq-footprinting && 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-atac-seq-footprinting" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-atac-seq-footprinting into .claude/skills/bio-atac-seq-footprinting/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-atac-seq-footprinting", 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-atac-seq-footprintingType 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-atac-seq-footprinting -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills bio-atac-seq-footprinting --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-atac-seq-footprinting .agents/skills/bio-atac-seq-footprinting && 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-atac-seq-footprinting" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-atac-seq-footprinting into .agents/skills/bio-atac-seq-footprinting/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-atac-seq-footprinting", 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-atac-seq-footprinting -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills bio-atac-seq-footprinting --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-atac-seq-footprinting .cursor/skills/bio-atac-seq-footprinting && 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-atac-seq-footprinting" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-atac-seq-footprinting into .cursor/skills/bio-atac-seq-footprinting/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-atac-seq-footprinting", 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-atac-seq-footprinting--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-atac-seq-footprinting -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install FreedomIntelligence/OpenClaw-Medical-Skills bio-atac-seq-footprinting --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-atac-seq-footprinting .gemini/skills/bio-atac-seq-footprinting && 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-atac-seq-footprinting" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-atac-seq-footprinting into .gemini/skills/bio-atac-seq-footprinting/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-atac-seq-footprinting", 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-atac-seq-footprintingInstalls 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-atac-seq-footprinting -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-atac-seq-footprinting .github/skills/bio-atac-seq-footprinting && 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-atac-seq-footprinting" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-atac-seq-footprinting into .github/skills/bio-atac-seq-footprinting/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-atac-seq-footprinting", 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-atac-seq-footprinting -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-atac-seq-footprinting --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-atac-seq-footprinting .opencode/skills/bio-atac-seq-footprinting && 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-atac-seq-footprinting" agent skill from https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-atac-seq-footprinting into .opencode/skills/bio-atac-seq-footprinting/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bio-atac-seq-footprinting", 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-atac-seq-footprinting- GitHub stars
- 3.1k
- Token cost
- ~1.8k tokens
- SKILL.md length
- 296 words
- Files
- 3
- Skills in repo
- 279
- Repo updated
- First seen
- Licence
- None found
At a glance
Detect transcription factor binding sites through footprinting analysis in ATAC-seq data using TOBIAS.
- Identifying TF occupancy patterns within accessible regions
- SKILL.md covers Version Compatibility, TOBIAS Workflow, TOBIAS Differential Footprinting and Download JASPAR Motifs, plus 11 more sections
- Runs Shell scripts from its folder; calls wget and pip; reaches jaspar.genereg.net
- As TF binding protects DNA from Tn5 cutting
What it does
Bio Atac Seq Footprinting is an agent skill from FreedomIntelligence/OpenClaw-Medical-Skills. Detect transcription factor binding sites through footprinting analysis in ATAC-seq data using TOBIAS. Use when identifying TF occupancy patterns within accessible regions, as TF binding protects DNA from Tn5 cutting.
Its SKILL.md is about 1.8k tokens, which your agent loads only when the skill is triggered. The skill folder holds 3 other files (for example `examples/run_tobias.sh` and `usage-guide.md`).
It sits in Security, covering OSINT, Bioinformatics and Transcription. The repository describes itself as: The largest open-source medical AI skills library for OpenClaw🦞.
When your agent uses it
- Identifying TF occupancy patterns within accessible regions
- As TF binding protects DNA from Tn5 cutting
Example prompts
- “/bio-atac-seq-footprinting”
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:
wgetpip
From the folder's file list and the shell code blocks in SKILL.md.
Network
Hosts in commands or code, which the agent is likely to contact:
jaspar.genereg.net
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 Atac Seq Footprinting loads about 1.8k tokens when it runs. Until then it costs about 61 tokens; SKILL.md has 296 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 296 words (~1,818 tokens).
“Reference examples tested with: bedtools 2.31+, matplotlib 3.8+, numpy 1.26+, pandas 2.2+, pyBigWig 0.3+, samtools 1.19+”
- name
- bio-atac-seq-footprinting
- tool_type
- cli
- primary_tool
- tobias
Files
SKILL.md and 2 other files in skills/bio-atac-seq-footprinting of FreedomIntelligence/OpenClaw-Medical-Skills.
- SKILL.md
- examples/run_tobias.sh
- usage-guide.md
Open the folder on GitHubat commit b1f9b6e
Compare with similar skills
Bio Atac Seq Footprinting 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 Atac Seq Footprinting this skillFreedomIntelligence/OpenClaw-Medical-Skills | 3.1k | — | ~1.8k | Automated safety check: Pass | None | |
| Bio Atac Seq FootprintingGPTomics/bioSkills | 1.2k | 2 repos | ~4.8k | Automated safety check: Pass | MIT | |
| Alphagenome Single Variant Analysisgoogle-deepmind/science-skills | 3.2k | 2 repos | ~3k | Automated safety check: Notes | Apache-2.0 | |
| Ucsc Conservation And Tfbsgoogle-deepmind/science-skills | 3.2k | 1 repos | ~1.9k | Automated safety check: Pass | Apache-2.0 | |
| ArboretoK-Dense-AI/scientific-agent-skills | 48k | 1 repos | ~2.7k | Automated safety check: Pass | BSD-3-Clause | |
| Bio Chipseq Allele Specific BindingGPTomics/bioSkills | 1.2k | 2 repos | ~3.9k | Automated safety check: Pass | MIT |
Similar skills
Alphagenome Single Variant Analysis
google-deepmind/science-skills
Analyzes genetic variant effects on gene expression (RNA-seq), chromatin accessibility (DNASE), histone marks (ChIP), and transcription factors using the AlphaGenome API.
Ucsc Conservation And Tfbs
google-deepmind/science-skills
Fetch Evolutionary Conservation scores (phyloP, phastCons) and Transcription Factor Binding Sites (TFBS) from the UCSC Genome Browser.
Arboreto
K-Dense-AI/scientific-agent-skills
Infers candidate gene regulatory networks from bulk or single-cell expression data using AertsLab Arboreto GRNBoost2 and GENIE3.
Bio Chipseq Allele Specific Binding
GPTomics/bioSkills
Detects allele-specific transcription factor or histone modification binding from heterozygous-variant ChIP-seq using WASP (reference-bias filter; mandatory upstream), RASQUAL (joint QTL +…
Bio Chipseq Super Enhancers
GPTomics/bioSkills
Identifies super-enhancers from H3K27ac, MED1, or BRD4 ChIP-seq using ROSE, ROSE2, LILY, HOMER -style super, and ENCODE dELS cross-referencing.
More from FreedomIntelligence/OpenClaw-Medical-Skills
All 279 skills in this repoSingle Cell Rna Qc
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.
Differentiation Schemes
FreedomIntelligence/OpenClaw-Medical-Skills
Select and apply numerical differentiation schemes for PDE/ODE discretization.
Fhir Developer Skill
FreedomIntelligence/OpenClaw-Medical-Skills
FHIR API development guide for building healthcare endpoints.
Linear Solvers
FreedomIntelligence/OpenClaw-Medical-Skills
Select and configure linear solvers for systems Ax=b in dense and sparse problems.
Medical Research Toolkit
FreedomIntelligence/OpenClaw-Medical-Skills
Query 14+ biomedical databases for drug repurposing, target discovery, clinical trials, and literature research.
Mesh Generation
FreedomIntelligence/OpenClaw-Medical-Skills
Plan and evaluate mesh generation for numerical simulations.
Related
Questions about Bio Atac Seq Footprinting
What does Bio Atac Seq Footprinting do?
Detect transcription factor binding sites through footprinting analysis in ATAC-seq data using TOBIAS. Bio Atac Seq Footprinting is an agent skill from FreedomIntelligence/OpenClaw-Medical-Skills. Detect transcription factor binding sites through footprinting analysis in ATAC-seq data using TOBIAS.
When should I use Bio Atac Seq Footprinting?
Bio Atac Seq Footprinting fits situations like: identifying TF occupancy patterns within accessible regions; as TF binding protects DNA from Tn5 cutting.
How do I install Bio Atac Seq Footprinting in Claude Code?
Run `npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-atac-seq-footprinting -a claude-code`. Or copy the skill folder (skills/bio-atac-seq-footprinting in FreedomIntelligence/OpenClaw-Medical-Skills) into .claude/skills/bio-atac-seq-footprinting in your project. Claude Code loads it when a task matches its description.
How do I install Bio Atac Seq Footprinting in Codex?
Run `npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-atac-seq-footprinting -a codex`. Or copy the skill folder (skills/bio-atac-seq-footprinting in FreedomIntelligence/OpenClaw-Medical-Skills) into .agents/skills/bio-atac-seq-footprinting in your project. Codex loads it when a task matches its description.
Can I use Bio Atac Seq Footprinting 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-atac-seq-footprinting -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-atac-seq-footprinting, .gemini/skills/bio-atac-seq-footprinting, .github/skills/bio-atac-seq-footprinting and .opencode/skills/bio-atac-seq-footprinting in your project.
What does Bio Atac Seq Footprinting need to run?
Going by SKILL.md and its folder, Bio Atac Seq Footprinting needs a shell for the scripts in its folder and the command-line tools its instructions call (wget and pip). Our summary lists: Python 3; A Bash shell.
Does Bio Atac Seq Footprinting access the network?
SKILL.md names 1 domain. In commands or code: jaspar.genereg.net; the agent is likely to contact it when it follows the instructions. This is read from the text; nothing was executed.
Is Bio Atac Seq Footprinting 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 Atac Seq Footprinting use?
No licence was found for Bio Atac Seq Footprinting or its repository. Without one, default copyright applies: ask the author before reusing or redistributing it.
How many tokens does Bio Atac Seq Footprinting use?
About 1.8k tokens (SKILL.md is roughly 7.3k 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 Atac Seq Footprinting?
Skills that share tags, products or a category with Bio Atac Seq Footprinting: Bio Atac Seq Footprinting (GPTomics/bioSkills, 1.2k stars), Alphagenome Single Variant Analysis (google-deepmind/science-skills, 3.2k stars), Ucsc Conservation And Tfbs (google-deepmind/science-skills, 3.2k stars) and Arboreto (K-Dense-AI/scientific-agent-skills, 48k stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.
Who maintains Bio Atac Seq Footprinting?
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.