All skills & plugins / Scientific Agent Skills (K-Dense)

pathogen-variant-surveillance

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

Type: Skill by K-Dense Inc.
Catalog: Scientific Agent Skills (K-Dense)
Source: K-Dense-AI/scientific-agent-skills/skills/pathogen-variant-surveillance (9 files scanned)
Install and details: Agent Skills Index entry
License: MIT (SKILL.md frontmatter)
Signals: Pre-approved shellBundled scriptsNetwork calls in code

Pre-approved tools

Shell (any command). Tools listed in allowed-tools (or an agent's tools) can be used without a permission prompt while the skill is active, depending on your agent and settings.

Kind	Tools
read/search	`Read`
write/edit files	`WriteEdit`
shell, any command	`Bash`

Declared in pathogen-variant-surveillance/SKILL.md.

Hooks

No hooks.

MCP servers and apps

None.

Bundled code

5 code files (Python):

Network calls

1 file with a network call pattern. First match per file:

skills/pathogen-variant-surveillance/scripts/lapis_client.py:27
```
import urllib.request
```

Starts other programs

No subprocess, exec or eval pattern found.

Credentials referenced

No key, token or secret environment variable found in code or MCP config.

Static scan of commit 5f2bc03 on 2026-10-27. Signals are patterns found in the files, not a verdict: a network call can be the whole point of a skill. Read the linked lines before you decide. How the scan works.