Agent Plugins Marketplace
← All plugins

bioflow

v0.1.0

Codex plugin wrapper for qgzeng's SLURM bioinformatics workflow skill.

CodexClaude Code1 Skill

By Qgzeng BioLicense: UNLICENSED0 GitHub starsUpdated 2 weeks ago

Directory evidence

Runtimes
Codex and Claude Code
Parsed components
1 skill or MCP entry
Source updated
Oct 4, 2026
Manifest status
Canonical path parsed

The directory validates manifest shape and source location. It does not execute the plugin or provide a security endorsement. Review the indexing methodology →

Install bioflow for Codex and Claude Code

Installs for the current user
codex plugin marketplace add Qgzeng-Bio/Bio-workflow
codex plugin marketplace upgrade qgzeng-bio-beta
codex plugin add bioflow@qgzeng-bio-beta

Paste and run these commands in a terminal with Codex. They add and refresh the qgzeng-bio-beta catalog, then install this plugin.

Compatibility: the page URL and API slug “bioflow” remain stable.

  • Codex: bioflow@agent-plugin-marketplace → bioflow@qgzeng-bio-beta

The installer fetches third-party code from the source repository shown on this page. This directory validates manifest structure and source location, but does not perform a security audit; review the manifest, components, and source before installing.

Get the source manually
git clone https://github.com/Qgzeng-Bio/Bio-workflow

Clone the source repository, then follow its setup instructions to add the plugin to a compatible client. The plugin root is plugins/bioflow/.

Plugin files

plugins/bioflow/
├── .codex-plugin/plugin.json
├── .claude-plugin/plugin.json
└── skills/bioflow/SKILL.md

Included Skills1

bioflowskills/bioflow/SKILL.md

Proactively use when entering, starting, resuming, auditing, organizing, running, validating, plotting, or writing from a bioinformatics project under /data9/home/qgzeng/projects. Covers project takeover; layout-v2 config/rawdata/scripts/logs/tmp/results/docs/manuscripts governance; one-analysis-one-result entry; internal versions; figure packages; Git/GitHub and manuscript traceability; SLURM, containers, resources, monitoring, result acceptance, quinoa genomics, assembly, annotation, repeats, pan-genome, RNA-seq, GWAS, SNP/INDEL/SV, synteny, and centromeres. Enforces bounded scans, no login-node compute, no protected data/tools writes, no formal evidence in tmp, no unsafe automatic migration, and no default non-debug SLURM time limit.

Plugin manifests2

plugins/bioflow/.codex-plugin/plugin.json
{
  "name": "bioflow",
  "version": "0.1.0",
  "description": "Codex plugin wrapper for qgzeng's SLURM bioinformatics workflow skill.",
  "author": {
    "name": "Qgzeng Bio",
    "url": "https://github.com/Qgzeng-Bio"
  },
  "homepage": "https://github.com/Qgzeng-Bio/Bio-workflow",
  "repository": "https://github.com/Qgzeng-Bio/Bio-workflow",
  "license": "UNLICENSED",
  "keywords": [
    "bioinformatics",
    "slurm",
    "workflow",
    "codex-skill",
    "qgzeng"
  ],
  "skills": "./skills/",
  "interface": {
    "displayName": "Bioflow",
    "shortDescription": "qgzeng SLURM bioinformatics workflow skill.",
    "longDescription": "A Codex plugin wrapper around the bioflow skill for qgzeng's /data9 SLURM server. It is not a generic bioinformatics toolkit; adapt paths, QOS, protected directories, and cluster policy before using it elsewhere.",
    "developerName": "Qgzeng Bio",
    "category": "Productivity",
    "capabilities": [
      "Planning",
      "Validation",
      "Write"
    ],
    "defaultPrompt": [
      "Use bioflow to resume and validate a SLURM workflow.",
      "Use bioflow to review this sbatch script before submission.",
      "Use bioflow to onboard a bioinformatics tool safely."
    ],
    "brandColor": "#2E8B57"
  }
}
plugins/bioflow/.claude-plugin/plugin.json
{
  "name": "bioflow",
  "displayName": "Bioflow",
  "version": "0.1.0",
  "description": "Claude Code plugin wrapper for qgzeng's SLURM bioinformatics workflow skill.",
  "author": {
    "name": "Qgzeng Bio",
    "url": "https://github.com/Qgzeng-Bio"
  },
  "homepage": "https://github.com/Qgzeng-Bio/Bio-workflow",
  "repository": "https://github.com/Qgzeng-Bio/Bio-workflow",
  "license": "UNLICENSED",
  "keywords": [
    "bioinformatics",
    "slurm",
    "workflow",
    "claude-code",
    "qgzeng"
  ],
  "skills": "./skills/"
}

For maintainers

If you maintain this plugin, link to this source-backed listing from your README so users can review its manifest and indexed components.

[bioflow on Agent Plugins Marketplace](https://pluginsmp.com/plugins/bioflow)