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

qiime2-amplicon

Processes paired-end 16S amplicon reads into QIIME 2 ASVs and taxonomy with retained artifact provenance. Checks paired FASTQ manifests, primer orientation diagnostics, predicted post-trimming overlap, sample IDs, runtime versions and read retention, and guides selection of compatible taxonomic classifiers.

Type: Skill by K-Dense Inc.
Catalog: Scientific Agent Skills (K-Dense)
Source: K-Dense-AI/scientific-agent-skills/skills/qiime2-amplicon (3 files scanned)
Install and details: Agent Skills Index entry
License: MIT (SKILL.md frontmatter)
Signals: Bundled scriptsSpawns processes

Pre-approved tools

No allowed-tools or tools list in its SKILL.md, command or agent files, so the agent asks before using tools as usual.

Hooks

No hooks.

MCP servers and apps

None.

Bundled code

1 code file (Python):

qiime2-amplicon/scripts/amplicon_workflow.py

Network calls

No HTTP or socket call pattern found in the code.

Starts other programs

1 file. First match per file:

skills/qiime2-amplicon/scripts/amplicon_workflow.py:181

info = subprocess.run([args.qiime, 'info'], check=True, text=True, capture_output=True).stdout

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.