Metadata-Version: 2.4
Name: bijux-proteomics-knowledge
Version: 0.3.4
Summary: Evidence, trust, and contradiction-resolution models for auditable proteomics decision knowledge graphs
Project-URL: Homepage, https://bijux.io/bijux-proteomics/
Project-URL: Documentation, https://bijux.io/bijux-proteomics/bijux-proteomics-knowledge/
Project-URL: Repository, https://github.com/bijux/bijux-proteomics
Project-URL: Issues, https://github.com/bijux/bijux-proteomics/issues
Project-URL: Changelog, https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/CHANGELOG.md
Project-URL: Security, https://github.com/bijux/bijux-proteomics/blob/main/SECURITY.md
Author-email: Bijan Mousavi <bijan@bijux.io>
Maintainer-email: Bijan Mousavi <bijan@bijux.io>
License: Apache-2.0
Keywords: conflict-resolution,evidence-graph,knowledge-governance,proteomics,trust-scoring
Classifier: Development Status :: 3 - Alpha
Classifier: Intended Audience :: Developers
Classifier: Intended Audience :: Science/Research
Classifier: License :: OSI Approved :: Apache Software License
Classifier: Operating System :: OS Independent
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3 :: Only
Classifier: Programming Language :: Python :: 3.11
Classifier: Programming Language :: Python :: 3.12
Classifier: Programming Language :: Python :: 3.13
Classifier: Programming Language :: Python :: 3.14
Classifier: Typing :: Typed
Requires-Python: <4,>=3.11
Requires-Dist: bijux-proteomics-foundation>=0.3.4
Requires-Dist: pydantic>=2.0.2
Description-Content-Type: text/markdown

# bijux-proteomics-knowledge

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<!-- bijux-proteomics-badges:generated:end -->

`bijux-proteomics-knowledge` models the evidence and claim layer behind protein
program decisions, including trust scoring, contradiction handling, and
decision-lineage structures.

Use this package when you need auditable evidence provenance, conflict-aware
knowledge management, and explicit reasoning about uncertainty and evidence
gaps.

## Why teams pick this package

- explicit evidence and claim models with trust and freshness semantics
- contradiction-aware resolution workflows that preserve audit history
- decision lineage structures for explainable governance and retrospectives
- compatibility with cross-package schema and serialization contracts

## Typical use cases

- store and score evidence used to advance or block protein program decisions
- detect conflicting claims and apply explicit resolution policies
- build auditable trails that explain why a conclusion changed over time
- surface unresolved knowledge gaps before committing lab or portfolio spend

## Installation

```bash
pip install bijux-proteomics-knowledge
```

## Quick start

```python
from bijux_proteomics_knowledge import evidence, claims, resolution, graph
```

## Package boundaries

This package owns evidence records, claim state, trust scoring, and contradiction resolution.

It does not own lifecycle gate transitions, ranking policy decisions, or experiment scheduling.

## Source guide

- [`src/bijux_proteomics_knowledge/evidence.py`](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/src/bijux_proteomics_knowledge/evidence.py) for evidence models, scoring, and contradiction detection
- [`src/bijux_proteomics_knowledge/resolution.py`](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/src/bijux_proteomics_knowledge/resolution.py) for conflict-resolution policies
- [`src/bijux_proteomics_knowledge/graph.py`](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/src/bijux_proteomics_knowledge/graph.py) for evidence-graph validation rules
- [`src/bijux_proteomics_knowledge/claims.py`](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/src/bijux_proteomics_knowledge/claims.py) for claim modeling and knowledge-gap audits
- [`tests`](https://github.com/bijux/bijux-proteomics/tree/main/packages/bijux-proteomics-knowledge/tests) for executable behavior expectations

## Documentation

- [Package guide](https://bijux.io/bijux-proteomics/bijux-proteomics-knowledge/)
- [Ownership boundary](https://bijux.io/bijux-proteomics/bijux-proteomics-knowledge/foundation/ownership-boundary/)
- [Architecture overview](https://bijux.io/bijux-proteomics/bijux-proteomics-knowledge/architecture/)
- [Interface contracts](https://bijux.io/bijux-proteomics/bijux-proteomics-knowledge/interfaces/)
- [Release and versioning](https://bijux.io/bijux-proteomics/bijux-proteomics-knowledge/operations/release-and-versioning/)
