Research Data Python Packages

data-aggregator-mcp

Unified research-data acquisition MCP — search & fetch datasets across Zenodo, DataCite, NCBI omics (GEO/SRA/BioProject), and literature (PubMed/OpenAIRE) behind one normalized model.

metaseed

Create, edit, and validate scientific metadata against a standard (MIAPPE, ISA, Darwin Core, DiSSCo, ENA, PRIDE, MetaboLights, FAIRDOM-SEEK) from a YAML profile — CLI, web interface, Python API, and MCP server.

mex-common

RKI Metadata Exchange | Software development toolkit for the MEx project that contains utilities for building pipelines and services, including shared code for logging, configuration and data models.

mex-model

RKI Metadata Exchange | Metadata model in JSON schema format to facilitate interoperability and formalize the technical implementation in MEx applications.

rdmo

A tool to support the planning, implementation, and organization of research data management.

omnipy

Omnipy is a high level Python library for type-driven data wrangling and scalable workflow orchestration (under development)

rddac

Python interface for the RDDAC dataset: 9,000 deep drawing experiments with several modalities for ML and manufacturing research

benchlineage

Local-first provenance, calibration, uncertainty, and evidence bundles for EE experiments.

ddacs

Python interface for the DDACS dataset: 32K+ deep drawing simulations with stress, strain, and deformation data for ML and manufacturing research

mcp-zenodo

Zenodo MCP server — tool-based LLM integration with Zenodo (open-access research repository) via the Model Context Protocol (MCP)

dicomqc

Audit DICOM metadata for privacy risks.

patzilla

PatZilla is a modular patent information research platform and data integration toolkit with a modern user interface and access to multiple data sources.

phenodata

Acquire and process open access phenology data.

fairly

A package to create, publish, and clone research datasets

nfdinspector

A Python package to inspect formal quality problems in research data.

python-re3data

The Pythonic client for the re3data API.

jupyter-fairly

A JupyterLab extension for seamless integration of Jupyter-based research environments and research data repositories.

empirical-data-contracts

Typed Pydantic contracts for reproducible empirical data: identity, provenance, grain, geography, time, coverage, QA and run manifests.

jupyterfair

A JupyterLab extension for seamless integration of Jupyter-based research environments and research data repositories.