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.
Build or update Grain's interactive component genome. An agent skill from ObneyAI/grain.
Install Grain Genome
$ npx skills add ObneyAI/grain --skill grain-genome -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install ObneyAI/grain grain-genome --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/ObneyAI/grain.git skills-src && mkdir -p .claude/skills && cp -r skills-src/skills/grain-genome .claude/skills/grain-genome && 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 "grain-genome" agent skill from https://github.com/ObneyAI/grain/tree/main/skills/grain-genome into .claude/skills/grain-genome/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "grain-genome", 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/ObneyAI/grain/tree/main/skills/grain-genomeType 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 ObneyAI/grain --skill grain-genome -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install ObneyAI/grain grain-genome --agent codexProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/ObneyAI/grain.git skills-src && mkdir -p .agents/skills && cp -r skills-src/skills/grain-genome .agents/skills/grain-genome && rm -rf skills-srcUse ~/.agents/skills/ instead of .agents/skills for a personal install.
Codex skills documentation · loads skills from .agents/skills/
Install the "grain-genome" agent skill from https://github.com/ObneyAI/grain/tree/main/skills/grain-genome into .agents/skills/grain-genome/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "grain-genome", 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 ObneyAI/grain --skill grain-genome -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install ObneyAI/grain grain-genome --agent cursorProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/ObneyAI/grain.git skills-src && mkdir -p .cursor/skills && cp -r skills-src/skills/grain-genome .cursor/skills/grain-genome && 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 "grain-genome" agent skill from https://github.com/ObneyAI/grain/tree/main/skills/grain-genome into .cursor/skills/grain-genome/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "grain-genome", 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/ObneyAI/grain.git --path skills/grain-genome--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 ObneyAI/grain --skill grain-genome -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install ObneyAI/grain grain-genome --agent gemini-cliProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/ObneyAI/grain.git skills-src && mkdir -p .gemini/skills && cp -r skills-src/skills/grain-genome .gemini/skills/grain-genome && 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 "grain-genome" agent skill from https://github.com/ObneyAI/grain/tree/main/skills/grain-genome into .gemini/skills/grain-genome/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "grain-genome", 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 ObneyAI/grain grain-genomeInstalls 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 ObneyAI/grain --skill grain-genome -a github-copilotProject install goes to .agents/skills/; add -g for ~/.copilot/skills/.
$ git clone --depth 1 https://github.com/ObneyAI/grain.git skills-src && mkdir -p .github/skills && cp -r skills-src/skills/grain-genome .github/skills/grain-genome && 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 "grain-genome" agent skill from https://github.com/ObneyAI/grain/tree/main/skills/grain-genome into .github/skills/grain-genome/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "grain-genome", 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 ObneyAI/grain --skill grain-genome -a opencodeOpenCode documents no install command of its own. Project install goes to .agents/skills/; add -g for ~/.config/opencode/skills/.
$ gh skill install ObneyAI/grain grain-genome --agent opencodeProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/ObneyAI/grain.git skills-src && mkdir -p .opencode/skills && cp -r skills-src/skills/grain-genome .opencode/skills/grain-genome && 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 "grain-genome" agent skill from https://github.com/ObneyAI/grain/tree/main/skills/grain-genome into .opencode/skills/grain-genome/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "grain-genome", 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
grain-genome- GitHub stars
- 124
- Token cost
- ~445 tokens
- SKILL.md length
- 169 words
- Files
- 1
- Skills in repo
- 8
- Repo updated
- First seen
- Licence
- MIT
At a glance
Build or update Grain's interactive component genome. An agent skill from ObneyAI/grain.
- Works in 4 steps: Run bb scripts/genome/genome.bb from the… → Resolve every warning in genome-taste.edn → Rebuild until the coverage report is… → …
- Regenerating scripts/genome/grain-genome.html
- SKILL.md covers Loop and Taste rules
- Calls node
What it does
Grain Genome is an agent skill from ObneyAI/grain. Build or update Grain's interactive component genome. Use when regenerating scripts/genome/grain-genome.html, resolving genome coverage warnings after component or macro changes, editing the taste overlay, or visually verifying component placement. Keep repository facts deterministic and human placement/description decisions in genome-taste.edn.
Its SKILL.md is about 450 tokens, which your agent loads only when the skill is triggered. It is a single SKILL.md file with no bundled scripts.
It sits in Research & Science, covering Bioinformatics. The repository describes itself as: Build Reasonable Applications with Clojure in the World of Natural Language Programming. The licence is MIT.
When your agent uses it
- Regenerating scripts/genome/grain-genome.html
- Resolving genome coverage warnings after component
- Editing the taste overlay
- Visually verifying component placement
Example prompts
- “/grain-genome”
Workflow steps
4 steps, taken from the first numbered list in SKILL.md.
- Run bb scripts/genome/genome.bb from the repository root.
- Resolve every warning in genome-taste.edn
- Rebuild until the coverage report is clean.
- Run node scripts/genome/shoot.js, inspect every screenshot, and adjust the
What it can do on your machine
Read from SKILL.md and the folder at commit dbf5b52. 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
Shell commands in SKILL.md call:
node
From the folder's file list and the shell code blocks in SKILL.md.
Network
No URLs in SKILL.md.
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
Grain Genome loads about 445 tokens when it runs. Until then it costs about 90 tokens; SKILL.md has 169 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
The full file from ObneyAI/grain at commit dbf5b52, republished under its MIT licence (© ObneyAI). 169 words, ~445 tokens.
Download SKILL.mdSave it as
.claude/skills/grain-genome/SKILL.md (or your agent's skills folder).- name
- grain-genome
- description
- Build or update Grain's interactive component genome. Use when regenerating scripts/genome/grain-genome.html, resolving genome coverage warnings after component or macro changes, editing the taste overlay, or visually verifying component placement. Keep repository facts deterministic and human placement/description decisions in genome-taste.edn.
Grain Genome
bb scripts/genome/genome.bb combines deterministic repository facts with the
editorial overlay in scripts/genome/genome-taste.edn, then injects them into the
HTML/Scittle shell. Never hand-edit generated grain-genome.html.
Loop
- Run
bb scripts/genome/genome.bbfrom the repository root. - Resolve every warning in
genome-taste.edn:- Add missing current components with a unique
(col,row), cluster, short role, and description. - Remove entries for deleted or deprecated components.
- Add missing macros to the proper catalog group using the real arglist and a one-line purpose.
- Add missing current components with a unique
- Rebuild until the coverage report is clean.
- Run
node scripts/genome/shoot.js, inspect every screenshot, and adjust the overlay until traces and layers read clearly.
Taste rules
Rows represent dependency layers: apps, entry/coordination, processors, event-log spine, storage, foundation. Columns run write-left, log-center, read-right. Place nodes near dependencies, avoid shared cells, and exploit shared columns for hubs. Prefer service-area clusters when registered; otherwise classify components by their architectural role.
Facts such as dependencies, LOC, protocols, macros, and deprecation belong only
in genome.bb extraction. Placement, clusters, roles, descriptions, and macro
presentation belong only in genome-taste.edn.
© ObneyAI, MIT. Rendered from Markdown: HTML in the file is shown as text, images as links, and headings moved down two levels. Raw file
Files
Just SKILL.md in skills/grain-genome of ObneyAI/grain.
Open the folder on GitHubat commit dbf5b52
Compare with similar skills
Grain Genome 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 |
|---|---|---|---|---|---|---|
| Grain Genome this skillObneyAI/grain | 124 | — | ~445 | Automated safety check: Pass | MIT | |
| Alphagenome Single Variant Analysisgoogle-deepmind/science-skills | 3.2k | 2 repos | ~3k | Automated safety check: Notes | Apache-2.0 | |
| 13C Metabolic Flux AnalysisK-Dense-AI/scientific-agent-skills | 48k | 1 repos | ~3.2k | Automated safety check: Pass | MIT | |
| Clinvar Databasegoogle-deepmind/science-skills | 3.2k | 2 repos | ~3.9k | Automated safety check: Notes | Apache-2.0 | |
| Metabolic Study Planneraiming-lab/AutoResearchClaw | 15k | — | ~1.9k | Automated safety check: Pass | MIT | |
| Dbsnp Databasegoogle-deepmind/science-skills | 3.2k | 2 repos | ~3.4k | Automated safety check: Notes | Apache-2.0 |
Similar skills
13C Metabolic Flux Analysis
K-Dense-AI/scientific-agent-skills
Estimates reaction fluxes inside cells from steady-state carbon-13 labeling data with a bundled mfapy-based solver, and reports which fluxes the data pin down.
Clinvar Database
google-deepmind/science-skills
A skill your agent uses when needing clinical significance, pathogenicity classifications (e.g., Pathogenic, Benign, VUS), clinical evidence rationales, or finding "hard positive" benchmark controls…
Metabolic Study Planner
aiming-lab/AutoResearchClaw
Turns a broad metabolic modelling topic into a concrete, paper-shaped plan with organism, model, perturbations, metrics and figures before any FBA code is written.
Dbsnp Database
google-deepmind/science-skills
A skill your agent uses when you want to look up, map, and search for short genetic variants (SNPs, indels) in NCBI's dbSNP database.
MFA Pipeline Orchestrator
aiming-lab/AutoResearchClaw
Runs a metabolic flux analysis from model loading to phenotype prediction and figures by handing work to four sub-agents in sequence.
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Distill Grain Event Model topology from an existing system as the topology companion to Allium distill.
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Generate Grain topology and composition contract tests after Allium propagates behavioural tests.
Event Model Weed
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Event Model Elicit
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Related
Categories
Questions about Grain Genome
What does Grain Genome do?
Build or update Grain's interactive component genome. An agent skill from ObneyAI/grain. Grain Genome is an agent skill from ObneyAI/grain. Build or update Grain's interactive component genome.
When should I use Grain Genome?
Grain Genome fits situations like: regenerating scripts/genome/grain-genome.html; resolving genome coverage warnings after component; editing the taste overlay; visually verifying component placement.
How do I install Grain Genome in Claude Code?
Run `npx skills add ObneyAI/grain --skill grain-genome -a claude-code`. Or copy the skill folder (skills/grain-genome in ObneyAI/grain) into .claude/skills/grain-genome in your project. Claude Code loads it when a task matches its description.
How do I install Grain Genome in Codex?
Run `npx skills add ObneyAI/grain --skill grain-genome -a codex`. Or copy the skill folder (skills/grain-genome in ObneyAI/grain) into .agents/skills/grain-genome in your project. Codex loads it when a task matches its description.
Can I use Grain Genome 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 ObneyAI/grain --skill grain-genome -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/grain-genome, .gemini/skills/grain-genome, .github/skills/grain-genome and .opencode/skills/grain-genome in your project.
What does Grain Genome need to run?
Going by SKILL.md and its folder, Grain Genome needs the command-line tools its instructions call (node).
Does Grain Genome access the network?
SKILL.md contains no URLs. Any network use would come from the scripts or tools the agent runs. This is read from the text; nothing was executed.
Is Grain Genome 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 Grain Genome use?
Grain Genome is published under the MIT licence (the repository's licence). It allows redistribution, so the full SKILL.md is shown on this page.
How many tokens does Grain Genome use?
About 445 tokens (SKILL.md is roughly 1.8k 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 Grain Genome?
Skills that share tags, products or a category with Grain Genome: Alphagenome Single Variant Analysis (google-deepmind/science-skills, 3.2k stars), 13C Metabolic Flux Analysis (K-Dense-AI/scientific-agent-skills, 48k stars), Clinvar Database (google-deepmind/science-skills, 3.2k stars) and Metabolic Study Planner (aiming-lab/AutoResearchClaw, 15k stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.
Who maintains Grain Genome?
ObneyAI (a GitHub organization) maintains it in ObneyAI/grain, which has 124 GitHub stars. The repository holds 8 skills in this directory. The repository was last updated on October 9, 2026.
Source: ObneyAI/grain on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.