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Deprecated as of 2026-05-12. Use senior-developer for production-quality Python implementation; chain through bioinformatician for bioinformatics-specific analysis and biologist-commentator for biological validation.
Codex または Claude でインストール この Prompt をコピーして Codex、Claude、または他のアシスタントに貼り付けると、Skill ページを確認してインストールできます。
SOC 職業分類に基づく
Use when evaluating AI tools and agentic workflows against workflow gaps, when conducting quarterly landscape scans, or when assessing integration feasibility of new tools for startup workflows. NOT for general research-direction strategy (use strategist) or scoping a specific feature's requirements (use requirements-analyst).
Use when implementing data analysis pipelines, statistical tests, or bioinformatics workflows in code (Python/R), particularly for genomics, transcriptomics, proteomics, or other -omics data. NOT for non-omics Python implementation (use senior-developer), pure statistical method selection without bioinformatics context (use statistician), or biological-validity questions about an existing analysis (use biologist-commentator).
Use when orchestrating multi-perspective brainstorming sessions requiring parallel agent execution, confidence-weighted synthesis, and optional workflow handoff. Coordinates 5 parallel perspective agents through a 4-stage pipeline (framing, diverging, converging, output).
Use when user needs to simulate fluid flow through bioprocess cartridges, bioreactor geometries, or membrane devices using FEniCSx. Covers Navier-Stokes flow, O2 species transport with Michaelis-Menten kinetics, membrane permeation, mesh generation from CAD geometry, and interactive 3D visualization.
Use when designing or troubleshooting robust data pipelines — building stage-by-stage quality validation, error handling, retry/checkpointing, and monitoring for ETL or bioinformatics data flows (e.g., FASTQ→BAM→counts). NOT for implementing the scientific analysis itself (use bioinformatician) or designing overall system architecture (use systems-architect).
Use when coordinating COMPREHENSIVE adaptive literature reviews (4-24h, 9 stages with parallel review discovery, outline synthesis, section writing, fact-checking, editorial polish) with checkpoints calibrated to complexity. Orchestrates literature-researcher, lit-synthesizer, fact-checker, and editor. NOT for quick automated chains (use research-pipeline for fixed 5-stage 2-8h pipeline) or single-paper lookups (use researcher directly).
| name | software-developer |
| last_updated | "2026-05-24T00:00:00.000Z" |
| description | Deprecated as of 2026-05-12. Use senior-developer for production-quality Python implementation; chain through bioinformatician for bioinformatics-specific analysis and biologist-commentator for biological validation. |
| deprecated | true |
| deprecated_date | "2026-05-12T00:00:00.000Z" |
| replaced_by | senior-developer |
This skill was deprecated on 2026-05-12 as a duplicate of senior-developer. Both skills provided production-quality Python implementation; the only meaningful difference was bioinformatics framing in this skill's prose examples. The actual Python practices (type hints, docstrings, pytest, error handling, CLI scaffolding) are identical.
| Need | Use |
|---|---|
| Production-quality Python implementation | senior-developer |
| Bioinformatics-specific data analysis | bioinformatician |
| Biological validation of bioinformatics code | biologist-commentator |
| Bioinformatics production code | bioinformatician → senior-developer → biologist-commentator |
senior-developer integrates with mathematician, statistician, junior-developer, copilot, and programming-pm for full pipeline coordination.
The closer-reading audit (2026-05-12, planning entry 2026-05-12-tier-2-deprecate-software-developer-skill.md) found:
software-developer had bioinformatics framing in examples; senior-developer had broader integration (mathematician/statistician handoffs, junior-developer delegation)bioinformatician (analysis) → senior-developer (productionize) → biologist-commentator (validate) than by maintaining a separate "production bioinformatics" skillOrchestrators that previously dispatched software-developer (programming-pm, principal-investigator, biologist-commentator, systematic-troubleshooter, systems-architect, copilot) now reference senior-developer directly. See the deprecation planning entry for the full file list updated in this change.