Repository README
Each project page can summarize the project scope, current resources, and practical next steps.
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PhysioVerse GitHub
Explore PhysioVerse public repositories, project documentation, examples, releases, citation information, and contribution pathways.
GitHub repositories
Public repositories for PhysioVerse resources
The PhysioVerse GitHub organization organizes open resources for MPS data, standards, validation, reproducibility, protocols, and community projects. Use the project table below to open each repository and identify the contribution pathway that fits your role.
Repository entry points
- Active project table
- Repository READMEs and documentation
- Issue pages for public input
- Releases and citation information
Active projects
PhysioVerse GitHub project table
This table mirrors the current public GitHub profile and links each project directly to its repository.
| Type | Project | What it is building | How the community can contribute |
|---|---|---|---|
| Open resource | Toward Standardization | Reference-anchored benchmarking for evaluating biological fidelity of advanced in vitro models. | Review methodology, nominate benchmark datasets, suggest reference standards, contribute model examples. |
| Open resource | DGE Tool Choice Benchmark | Reproducible benchmarking of edgeR and DESeq2 across sensitivity, robustness, biological interpretation, and cross-study performance. | Reuse workflows, review reproducibility, suggest benchmark extensions, contribute analytical feedback. |
| Ecosystem hub | PhysioVerse-OSE | Public entry point connecting the PhysioVerse ecosystem, contribution pathways, and open resources. | Start from the contribution guide, suggest improvements, connect relevant public resources. |
| Data | MPS Data Commons | Community-curated discovery of public MPS datasets. | Nominate datasets, add accessions or DOIs, correct records, identify missing datasets. |
| Standards | MPS Minimum Metadata Standard | Practical community working draft for the minimum information needed to understand and reuse MPS data. | Propose fields, review required and recommended metadata, share examples, identify existing standards. |
| Standards | MPS Model & System Descriptors | Shared terminology and descriptors for organoids, tissue chips, OTEs, organ-on-chip, body-on-chip, and related systems. | Propose definitions, identify ambiguous terminology, review descriptors, suggest ontology mappings. |
| Standards | MPS Experimental Conditions Standard | Reporting framework for experimental conditions that affect MPS interpretation and reproducibility. | Suggest fields for flow, media, dose, timing, materials, environment, and stimulation. |
| Standards | MPS Assay & Endpoint Dictionary | Shared definitions for assays, biological endpoints, units, and measurement context. | Nominate assays and endpoints, refine definitions, suggest units, provide public examples. |
| Benchmarking | MPS Reference Atlas | Community nominations and evaluation of biological reference datasets for MPS benchmarking. | Nominate reference datasets, review suitability and limitations, propose selection criteria. |
| Validation | MPS Validation Framework | Fit-for-purpose validation evidence and reporting considerations for MPS applications. | Propose criteria, share validation studies, review evidence, suggest performance measures. |
| Reproducibility | MPS Reproducibility Commons | Public evidence on cross-laboratory reproducibility, variability, and robustness. | Share studies, nominate benchmark datasets, report variability factors, suggest reproducibility metrics. |
| Multimodal data | MPS Multimodal Data Standard | Working approach for linking omics, imaging, histology, video, functional, and sensor data. | Share multimodal examples, propose linkage identifiers, define modality-specific metadata. |
| Protocols | MPS Protocol Commons | Community discovery and organization of public MPS protocols and SOP references. | Nominate protocols, connect protocols to datasets and publications, identify metadata and gaps. |
| Community action | MPS Community Challenges | Short, focused collaborative efforts around priority MPS data, standards, validation, and curation needs. | Propose a challenge, join an active challenge, contribute evidence, help define deliverables. |
Repository information
What visitors can find on GitHub
Repository pages provide structured entry points for public project information, documentation, issue-based feedback, releases, and citation details when available.
Issue trackers
Issue pages can collect dataset nominations, metadata suggestions, documentation requests, examples, and project feedback.
Releases and citation
Repository releases and citation metadata can help visitors reference stable versions of selected public resources.
Contribution guide
The contribution guide gives visitors a starting point for non-coding and technical participation.
GitHub organization
Visit the PhysioVerse-OSE organization
Open the organization page to view public repositories, follow project updates, and access repository-level resources.
