Fair Data Python Packages

schemasheets

Structure your data in a FAIR way using google sheets or TSVs. These are then converted to LinkML, and from there other formats

oxbow

Oxbow makes genomic data ready for high-performance analytics.

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.

nmdc-schema

National Microbiome Data Collaborative (NMDC) unified data model

nanopub

Python client for searching, publishing and modifying nanopublications.

arctrl

Polyglot (.NET/JS/Python) library for management of Annotated Research Contexts (ARCs) using an in-memory representation and runtime-agnostic contract systems.

damast

damast: A Python library to facilitate the creation of reproducible data processing pipelines and usage of FAIR data

pyelli

An open source ellipsometry analysis tool for reproducible and comprehensible building of optical models.

ome-zarr-io

Write, read and validate OME-Zarr 0.5 images and high-content screen plates.

sstim

SSTIM: the open formalized knowledge standard for describing sensory stimulation. RDF vocabulary, SHACL profiles, JSON-LD context, and SSTIM Workbench, its open reference environment. Developed in the W3C Sensory Stimulation Vocabulary Community Group.

ifdo

A Python library for creating, validating and manipulating iFDO (image FAIR Digital Object) metadata files

epyr-tools

Professional Python toolkit for EPR spectroscopy data analysis. Load Bruker files, apply baseline correction, analyze lineshapes, and convert to FAIR formats. Complete CLI suite with comprehensive testing.

dtool-lookup-api

Python client API for communicating with dserver.

fairaman

Python tool for converting biomedical Raman spectroscopy data into FAIR-oriented, AI-ready HDF5 files.

seedcase-sprout

Grow organised and FAIR data

fairdatanow

Experimental Python package to support working with data from our Nextcloud server

fairfetched

data APIs for convenient data fetching in cheminformatics in line with FAIR-principles

gimie

Extract linked metadata from repositories

dtool-lookup-gui

Graphical user interface for dtool and dserver written in Python and GTK3.

ovito-auto-viz

Automated, reproducible and FAIR visualization of atomistic simulations with OVITO — self-labeling figures with complete metadata and provenance

ndos

Recover, describe and query animal neuroscience data you did not organise yourself

marimba

A Python framework for structuring, processing, packaging and distributing FAIR scientific image datasets

fair-test

☑️ A library to build and deploy FAIR metrics tests APIs that can be used by FAIR evaluation services supporting the FAIRMetrics specifications, such as FAIR enough and the FAIR evaluator.

django-signposting

A Django middleware that adds FAIR signposting headers to HTTP responses, making your web application more FAIR.