Independent software & research-development ecosystem
Science, systems and agentic infrastructure — under active control.
CodBio Hub connects scientific software, bioinformatics pipelines, research knowledge, developer tooling and bounded AI systems inside one inspectable technical ecosystem.
Objective: expose useful public context while keeping implementation boundaries explicit and navigable.
roles
execution plan
- resolve ecosystem boundary
- load public registry
- bind working routes
- construct visitor context
- promote planetary navigator
- promote context cards
registry public project contract indexed READY
search command palette bound READY
navigator profile orbital browser promoted READY
context expertise popovers bound READY
01 / systems.registry
One ecosystem. Multiple execution surfaces.
System cards are rendered from the validated public project registry. Every card is a real link, not decorative UI.
A scientific software and research environment for bioinformatics, computational biology, structured knowledge and AI-assisted scientific workflows.
- Scientific software
- Bioinformatics
- Research workflows
A bioinformatics platform designed to host governed pipelines implemented in different programming languages.
- Bioinformatics
- Pipeline hosting
The first GeneBean-hosted pipeline: an R-based, governed workflow for RNA-seq analysis.
- R
- RNA-seq
- Reproducible workflows
A bounded assistance and routing layer connecting deterministic tools, structured evidence, retrieval and locally hosted model inference.
- Evidence
- Tool routing
- AI-assisted interface
Flagship scientific platform
Zomniverse
A modular scientific environment where bioinformatics pipelines, research workflows, structured knowledge and bounded AI-assisted tools operate inside one inspectable workspace.
- 01
- Governed scientific datasets
- 02
- Resumable ZAR datasets
- 03
- Validated pipeline handoffs
- 04
- AI-assisted analysis
02 / research.context
Research as inspectable context.
The 2.0 shell reads the existing canonical CV/About model directly. Profile navigation and expertise context now share the workspace interaction layer.
Transcriptomics, cancer research, reproducible computation and scientific software.
context://about/methods Methods & systemsBioinformatics, scientific computing, platform engineering, governance and AI-assisted systems.
context://registry/zomniverse-knowledge-country Zomniverse Knowledge CountryAn evolving Zomniverse knowledge ecosystem spanning tutorials, research resources, dataset records, scholarly works and technical documentation, with public and access-controlled areas and a dedicated contextual explainer AI.
context://registry/biojournal BioJournalScientific notes, research commentary and public knowledge resources across computational biology and related fields.
03 / artifact.index
Public work. Real destinations.
Independent products remain first-class engineering artifacts rather than being flattened into a generic portfolio gallery.
Private developer-AI R&D
ZAC
Active developmentZomniverse Agent for Code
A C#/.NET workspace exploring local, permission-bounded AI assistance for repository investigation.
Designed around explicit authority, observable actions, tested boundaries and human control.
CONTROL PRINCIPLEThe model proposes. The controller validates. Only the controller acts.
04 / agent.lab
Bounded agents. Explicit authority.
The interface language reflects real engineering principles: model proposals, deterministic validation, scoped tools and human-controlled actions.