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FuqingZh/README.md

Fuqing Zhang

I am a bioinformatics engineer with 3+ years of experience engineering and delivering scientific computing and bioinformatics workflows.

I clarify the boundaries between domain requirements, technical implementation, and data contracts, turning implicit workflow conventions into maintainable, verifiable systems. For each task, I make inputs, execution paths, output contracts, checks, and failure boundaries explicit so results can move reliably from intermediate computation to final delivery.

Codex is part of this engineering process: task context and change boundaries are defined explicitly; candidate implementations are compared and accepted through tests, logs, artifact inspection, and domain judgment.

Selected Work

  • Scientific data and provenancebiofetch retrieves and locks biological database snapshots; bioextract exposes them through stable, provenance-aware relations; seqevi provides content-addressed protein annotation evidence.

  • Delivery infrastructureneatxlsx and docxrender provide reusable output layers for analytical tables and reports.

  • AI-assisted engineeringcalibration defines engineering decision, validation, documentation, and retrospective boundaries for agent-assisted code changes.

Pinned Loading

  1. bioextractbioextractPublic

    Stable, provenance-aware domain access to official biological database snapshots.

    Python

  2. biofetchbiofetchPublic

    Versioned bioinformatics database acquisition and snapshot locking CLI

    Go

  3. docxrenderdocxrenderPublic

    Python

  4. neatxlsxneatxlsxPublic

    Consistent, reliable XLSX report tables for Polars and Arrow

    Rust

  5. seqeviseqeviPublic

    Content-addressed, reusable protein sequence annotation evidence.

    Python

  6. calibrationcalibrationPublic

    Python