Linkml Python Packages

prefixmaps

Semantic prefix map registry

json-flattener

Python library for denormalizing nested dicts or json objects to tables and back

linkml-dataops

Data API for LinkML instance data

schemasheets

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

nmdc-schema

National Microbiome Data Collaborative (NMDC) unified data model

neverblink-linkml

A fast, portable (JS/JVM/native), and robust implementation of LinkML for cross-language data modeling

linkml-owl

Extension of LinkML runtime for converting instances of LinkML classes to OWL (classes or instances)

linkml-model

Link Modeling Language (LinkML) model

schema-automator

Automated assistance for the schema development lifecycle

refscan

Command-line program that scans NMDC database for referential integrity violations

bioai-evidence-validator

Evidence validation and policy engine for AI-assisted biological curation

malleus-dev

Root ontology in LinkML for ontology-typed knowledge graphs with write-time validation and content-addressable convergence

kgcl

Tools for working with KGCL

biolinkmg

Schema and generated objects for biolink data model and upper ontology

linkml-datalog

Translates LinkML schemas into Datalog programs and executes them using Souffle, enabling advanced validation and inference over instance data. ALPHA.

crdch-model

CRDC-H model in LinkML, developed by the Center for Cancer Data Harmonization (CCDH)

sparqlfun

sparql templates for linkml (alpha)