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Get Started Free →mkurman/alphagenome-single-variant-analysis
Analyzes genetic variant effects on gene expression (RNA-seq), chromatin accessibility (DNASE), histone marks (ChIP), and transcription factors using the AlphaGenome API.
Passed 12 of 16 test cases with the skill, and 3 of 16 without it.
and 13 more in the full report
13 fixed3 passed either way5 still failing1 broke
Tokens, turns and time describe resource use, not a dollar price.
One of 13 test cases the skill fixed. Same model, same prompt, with and without the skill.
I converted our GTF annotation file to Feather format for faster querying in pandas. When I load the feather file and query `df['feature']` or `df['strand']`, my code throws a `KeyError`. Should I lower-case all column names or check how the Feather file standardizes metadata headers?
| Checked | Without skill | With skill |
|---|---|---|
| The response explains that the local GTF Feather file uses capitalized column names such as Feature, Start, End, and Strand. | Missed | Passed |
The instructions your model reads when the skill loads.
uv: Read the uv skill and follow its Setup instructions to ensure
uv is installed and on PATH.
User Notification: If LICENSE_NOTIFICATION.txt does not already exist in this skill directory then (1) prominently notify the user to check the terms at https://deepmind.google.com/science/alphagenome/, then (2) create the file recording the notification text and timestamp.
.env file: Make sure the .env file exists in your home directory.
Create one if it does not exist.
ALPHAGENOME_API_KEY: This skill requires an API key to function.
You must ask the user for an API key if this skill looks relevant to their
request and you do not have one in .env. The user can sign up at
https://deepmind.google.com/science/alphagenome/. Do NOT ask the user to
paste their key into the chat (this would leak the key into the agent's
context). Instead, explain that a key is necessary to use AlphaGenome and
give the user this command substituting ENV_FILE with the resolved
literal path to the .env file:
printf "Enter AlphaGenome API key (typing hidden): " && read -s key && echo && echo "ALPHAGENOME_API_KEY=$key" >> "ENV_FILE" && echo "Saved."
The scripts load credentials automatically via dotenv. NEVER read,
print, or inspect the .env file or its variables (e.g. no cat, grep,
echo, printenv, or os.environ.get on keys). Credentials must stay out
of the agent's context.
When running in sandbox, dotenv.load_dotenv() will be a no-op, and instead
the sandbox will read credentials and inject them directly.
python3 or python3 -c directly. The system Python does not
necessarily have pandas, numpy, and other key dependencies. ALWAYS use uv run to run ALL Python code — including scripts, ad-hoc analysis files, and
one-liners. Do not attempt to pip install or create new venvs — uv
manages an isolated environment automatically.test cases passed, vs 3 / 16 without
More skills from the same source and nearby in the registry, with their headline benchmark lift.