Getting it into your agent
One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.
npx skills add AlterLab-IEU/AlterLab-Academic-Skills --skill alterlab-gnomadgit clone --depth 1 https://github.com/AlterLab-IEU/AlterLab-Academic-SkillsWrote this? Show the measurements
A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.
[](https://agentmods.dev/skills/alterlab-ieu/alterlab-academic-skills/alterlab-gnomad)<a href="https://agentmods.dev/skills/alterlab-ieu/alterlab-academic-skills/alterlab-gnomad"><img src="https://agentmods.dev/badge/skills/alterlab-ieu/alterlab-academic-skills/alterlab-gnomad/github.svg" alt="Measured on agentmods" height="20"></a>Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.
<a href="https://agentmods.dev/skills/alterlab-ieu/alterlab-academic-skills/alterlab-gnomad"><img src="https://agentmods.dev/badge/skills/alterlab-ieu/alterlab-academic-skills/alterlab-gnomad.svg" alt="Reviewed on agentmods" width="80" height="20"></a>- NVIDIA SkillSpector warn
SkillSpector: 5 findings, up to medium
These are SkillSpector’s own severities. On a checked sample its high-severity flags on skills were ~96% false positives — a documented command, a public API, a “never do X” rule — so we show them as a caution to read, not a verdict. Why →
- medium Data Exfiltration · line 104 Data is being sent to an external URL. This could be legitimate telemetry or data exfiltration. Manual review is recommended.Fix: Verify the destination URL is trusted and necessary. Remove or replace with documented APIs. Ensure no secrets, tokens, or PII are transmitted.
- medium Data Exfiltration · line 181 Data is being sent to an external URL. This could be legitimate telemetry or data exfiltration. Manual review is recommended.Fix: Verify the destination URL is trusted and necessary. Remove or replace with documented APIs. Ensure no secrets, tokens, or PII are transmitted.
- medium Data Exfiltration · line 241 Data is being sent to an external URL. This could be legitimate telemetry or data exfiltration. Manual review is recommended.Fix: Verify the destination URL is trusted and necessary. Remove or replace with documented APIs. Ensure no secrets, tokens, or PII are transmitted.
- medium Data Exfiltration · line 294 Data is being sent to an external URL. This could be legitimate telemetry or data exfiltration. Manual review is recommended.Fix: Verify the destination URL is trusted and necessary. Remove or replace with documented APIs. Ensure no secrets, tokens, or PII are transmitted.
- medium Data Exfiltration · line 349 Data is being sent to an external URL. This could be legitimate telemetry or data exfiltration. Manual review is recommended.Fix: Verify the destination URL is trusted and necessary. Remove or replace with documented APIs. Ensure no secrets, tokens, or PII are transmitted.
What it costs to keep this loaded
Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5.1 | $0.00080 | $0.03769 |
| Opus 5 | $0.00040 | $0.01885 |
| Sonnet 5 | $0.00016 | $0.00754 |
| Haiku 4.5 | $0.00008 | $0.00377 |
Grade A, and why
alterlab-gnomad scanned grade A with 1 finding against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 7d ago.
A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.
Makes network callslowCapability
Not a fault in itself. Listed so you know the mod talks to something, and to what.
allowed-tools: Read WebFetch Bash(curl:*) Bash(python:*) How it starts
The opening of the file, as written. The whole thing — 421 lines — stays where its author put it; the contents beside it link to each section on GitHub.
gnomAD Database
Overview
The Genome Aggregation Database (gnomAD) is the largest publicly available collection of human genetic variation, aggregated from large-scale sequencing projects. gnomAD v4 contains exome sequences from 730,947 individuals and genome sequences from 76,215 individuals across diverse ancestries. It provides population allele frequencies, variant consequence annotations, and gene-level constraint metrics that are essential for interpreting the clinical significance of genetic variants.
Key resources:
- gnomAD browser: https://gnomad.broadinstitute.org/
- GraphQL API: https://gnomad.broadinstitute.org/api
- Data downloads: https://gnomad.broadinstitute.org/downloads
- Documentation: https://gnomad.broadinstitute.org/help
When to Use This Skill
Use gnomAD when:
- Variant frequency lookup: Checking if a variant is rare, common, or absent in the general population
- Pathogenicity assessment: Rare variants (MAF < 1%) are candidates for disease causation; gnomAD helps filter benign common variants
- Loss-of-function intolerance: Using pLI and LOEUF scores to assess whether a gene tolerates protein-truncating variants
- Population-stratified frequencies: Comparing allele frequencies across ancestries (African/African American, Admixed American, Ashkenazi Jewish, East Asian, Finnish, Middle Eastern, Non-Finnish European, South Asian)
- ClinVar/ACMG variant classification: gnomAD frequency data feeds into BA1/BS1 evidence codes for variant classification
- Constraint analysis: Identifying genes depleted of missense or loss-of-function variation (z-scores, pLI, LOEUF)
Core Capabilities
1. gnomAD GraphQL API
gnomAD uses a GraphQL API accessible at https://gnomad.broadinstitute.org/api. Most queries fetch variants by gene or specific genomic position.
Datasets available (values of the DatasetId enum):
gnomad_r4— gnomAD v4, GRCh38 (recommended default; returns bothexomeandgenomeblocks per variant — there is no separategnomad_r4_genomesid)gnomad_r3— gnomAD v3 genomes, GRCh38gnomad_r2_1— gnomAD v2, GRCh37 (use only for GRCh37 compatibility)
What ships with it
4 files beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.
What this file has done since we first saw it
Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.
- 7d ago First seen · 421 lines · 80 tokens per session scan A b4d2b17bd2a8
alterlab-gnomad is a skill published in the GitHub repository AlterLab-IEU/AlterLab-Academic-Skills (66 stars, last pushed 8d ago), licensed MIT. It adds 80 tokens to every session and 3,769 once invoked, about $0.0004 per session on Opus 5. A static security scan graded it A with 1 finding (makes network calls). No closer match exists in the catalogue, so it is treated as the original; first seen 2026-09-05.
Other skills, from other repositories
ob-hrm-scale-adaptor
A guide for adapting organisational behaviour and human-resources survey scales across languages and cultures. It covers permission checks, translation and back-translation, expert review, participant interviews, and tests of whether groups interpret the scale comparably.
r-spss-syntax-architect
A guide for turning research hypotheses into repeatable R or SPSS code for statistical analysis. It covers panel data, where the same companies or other units are observed over time, as well as interaction effects, curves, and mediation.
thesis-consistency-audit
A consistency audit for quantitative master’s and doctoral theses in management, finance, or strategy. It checks whether numbers, tables, analyses, and claims agree, and can inspect hidden author information in office documents.
management-figure
A chart-making toolkit for evidence-based management, finance, and strategy research. It creates publication-ready plots from regression results and tracking data, including coefficient, interaction, group-comparison, trend, and curved-relationship charts.
reproducibility-architect
A guide for packaging research so another person can rerun its data processing and analysis. A replication package is the project files, instructions, code, data guidance, and software details needed to reproduce published results.
journal-submission-scout
A research tool for choosing a journal for a completed paper. It searches for journals that publish similar work, compares public information such as citation data, fees, open-access listing, and review practices, and screens for warning signs of predatory journals, which charge authors without providing trustworthy publishing services.