Agent Skills Index

Directory / Scientific Agent Skills (K-Dense) / pathogen-variant-surveillance

pathogen-variant-surveillance

skill Science, research & learning

Queries public GenSpectrum LAPIS data for pathogen genomic surveillance, current lineage nomenclature, weekly sequence proportions, reporting delays, and descriptive mutation frequencies. Use for variant surveillance, Pango lineage validation, dominant submitted lineages, Nextclade assignment provenance, SARS-CoV-2, influenza/H5N1 clades, RSV, mpox, measles, dengue, or LAPIS queries. Distinguishes sequence prevalence from infection prevalence, clades from genotypes, missing calls from reference matches, and sampling changes from biological growth advantage.
Description from the SKILL.md front matter.

Information source

Copied from the Scientific Agent Skills (K-Dense) catalog (K-Dense-AI/scientific-agent-skills), maintained by K-Dense Inc..

Links are pinned to commit 593377b (2026-10-19), the version we synced. Not reviewed by us.

Install

GitHub CLI v2.90+ (Copilot by default)
gh skill install K-Dense-AI/scientific-agent-skills pathogen-variant-surveillance
For Claude Code
gh skill install K-Dense-AI/scientific-agent-skills pathogen-variant-surveillance --agent claude-code
For Codex
gh skill install K-Dense-AI/scientific-agent-skills pathogen-variant-surveillance --agent codex

Commands follow each host's documentation (Any Agent Skills host (Claude Code, Codex, Cursor, Gemini CLI, Copilot…) docs). gh skill needs GitHub CLI 2.90 or later and is in public preview.

Listed from K-Dense Inc.'s catalog, not reviewed by us. Read the source before installing.

Catalog
Scientific Agent Skills (K-Dense)
Information source
SKILL.md in K-Dense-AI/scientific-agent-skills
Author
K-Dense Inc.
Source code
K-Dense-AI/scientific-agent-skills
License
MIT
Repository stars
52,882 for K-Dense-AI/scientific-agent-skills (the whole catalog repo)
Version
1.3
Added to catalog
Not tracked for this source
Last change
2026-10-19 (last push to the repo)

What it contains

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