LinkML Registry
For more information on LinkML:
Registry Entries
| Title | Topics | Stars | GitHub URL |
|---|---|---|---|
| ontogpt LLM-based ontological extraction tools, including SPIRES |
796 (details) | monarch-initiative/ontogpt | |
| semantic-python-overview (subjective) overview of projects which are related both to python and semantic technologies (RDF, O... |
549 (details) | pysemtec/semantic-python-overview | |
| biolink-model Schema and generated objects for biolink data model and upper ontology |
ai4curation, biolink, datamodel... | 221 (details) | biolink/biolink-model |
| sssom Simple Standard for Sharing Ontology Mappings |
linkml, mapping, mapping-commons... | 184 (details) | mapping-commons/sssom |
| ontology-access-kit Ontology Access Kit: A python library and command line application for working with ontologies |
156 (details) | INCATools/ontology-access-kit | |
| DataHarmonizer A standardized browser-based spreadsheet editor and validator that can be run offline and locally, a... |
application, data, harmonization... | 119 (details) | cidgoh/DataHarmonizer |
| ai-atlas-nexus AI Atlas Nexus: tooling to bring together resources related to governance of foundation models. |
114 (details) | IBM/ai-atlas-nexus | |
| kg-covid-19 An instance of KG Hub to produce a knowledge graph for COVID-19 response. |
83 (details) | Knowledge-Graph-Hub/kg-covid-19 | |
| koza Data transformation framework for LinkML data models |
etl, knowledge-graph, koza... | 60 (details) | monarch-initiative/koza |
| sssom-py Python toolkit for SSSOM mapping format |
linkml, mappings, obofoundry... | 60 (details) | mapping-commons/sssom-py |
| mixs Minimum Information about any (X) Sequence” (MIxS) specification |
56 (details) | GenomicsStandardsConsortium/mixs | |
| semantic-sql SQL and SQLite builds of OWL ontologies |
ai4curation, linkml, monarchinitiative... | 55 (details) | INCATools/semantic-sql |
| go-site A collection of metadata, tools, and files associated with the Gene Ontology public web presence. |
49 (details) | geneontology/go-site | |
| specification Margo Specification |
46 (details) | margo/specification | |
| nmdc-schema National Microbiome Data Collaborative (NMDC) unified data model |
ecoinformatics, fair-data, genomics... | 44 (details) | microbiomedata/nmdc-schema |
| artificial-intelligence-ontology An ontology modeling classes and relationships describing deep learning networks, their component la... |
42 (details) | berkeleybop/artificial-intelligence-ontology | |
| alhazen AI agents + toolkits for scientific knowledge |
37 (details) | chanzuckerberg/alhazen | |
| semantic-llama A knowledge extraction tool that uses a large language model to extract semantic information from te... |
ai, knowledge-extraction, language-models... | 29 (details) | cmungall/semantic-llama |
| kgcl Datamodel for KGCL (Knowledge Graph Change Language) |
kgcl, linkml, ontology-changes... | 21 (details) | INCATools/kgcl |
| chemrof Schema for chemistry ontology classes |
chebi, chemistry, linkml... | 20 (details) | chemkg/chemrof |
| monarch-ingest Data ingest application for Monarch Initiative knowledge graph using Koza |
kgx, knowledge-graphs, linkml... | 20 (details) | monarch-initiative/monarch-ingest |
| kgcl-rdflib Tools for working with KGCL |
diff, diffs, kg... | 19 (details) | INCATools/kgcl-rdflib |
| py-typedlogic Logic plus python types |
answer-set-programming, clif, clingo... | 19 (details) | py-typedlogic/py-typedlogic |
| ccdhmodel CRDC-H model in LinkML, developed by the Center for Cancer Data Harmonization (CCDH) |
google-sheets, linkml | 17 (details) | cancerDHC/ccdhmodel |
| comp-loinc Computational LOINC in OWL. |
17 (details) | loinc/comp-loinc | |
| b2ai-standards-registry Bridge2AI Standards Registry data models, API specification, and other documentation. |
15 (details) | bridge2ai/b2ai-standards-registry | |
| ghga-metadata-schema Metadata schema for the German Human Genome-Phenome Archive (GHGA) |
fega, ghga, linkml... | 14 (details) | ghga-de/ghga-metadata-schema |
| monochrom Standardized identifiers and OWL classes for chromosomes and chromosomal parts across species |
ai4curation, chromosomes, etl... | 14 (details) | monarch-initiative/monochrom |
| ukgov-metadata-exchange-model A metadata model for describing data assets for exchanging between UK government organisations. |
14 (details) | co-cddo/ukgov-metadata-exchange-model | |
| markdown-corpus Many markdown files taken from around github |
13 (details) | tcr/markdown-corpus | |
| agr_curation_schema Schema repository for the Alliance of Genome Resources persistent data store |
11 (details) | alliance-genome/agr_curation_schema | |
| json-flattener Python library for denormalizing nested dicts or json objects to tables and back |
dataframes, denormalization, linkml... | 11 (details) | cmungall/json-flattener |
| ontorunner | 11 (details) | monarch-initiative/ontorunner | |
| chem-dcat-ap This is an extension of the DCAT Application Profile PLUS LinkML schema. It is intended to be used b... |
linkml-schema | 10 (details) | nfdi-de/chem-dcat-ap |
| dcat-ap-plus A domain-agnostic extension of the DCAT Application Profile. It allow providing domain-specific meta... |
9 (details) | nfdi-de/dcat-ap-plus | |
| im-tc57cim The CIM information model represented as LinkML schemas. |
9 (details) | Netbeheer-Nederland/im-tc57cim | |
| linkml-phenopackets EXPERIMENTAL rendering of phenopackets in linkml |
human-phenotype-ontology, linkml, metadata... | 9 (details) | cmungall/linkml-phenopackets |
| define-json A metadata exchange model for Data Contracts and specs. Simplified successor to Define-XML that link... |
8 (details) | TeMeta/define-json | |
| rarelink RareLink - A REDCap-based framework linking international registries to FHIR and Phenopackets |
8 (details) | BIH-CEI/rarelink | |
| rd-cdm Repo for the ontology-based rare disease common data model harmonising international registries, FHI... |
8 (details) | BIH-CEI/rd-cdm | |
| structsense | 8 (details) | sensein/structsense | |
| go-fastapi | 7 (details) | geneontology/go-fastapi | |
| im-cgmes ENTSO-E CGMES profiles represented as LinkML schemas. |
7 (details) | Netbeheer-Nederland/im-cgmes | |
| InfDB infDB (Infrastructure and Energy Database) provides a modular and easy-to-configure open-source dat... |
7 (details) | tum-ens/InfDB | |
| linkml-qudt Conversion of QUDT ontology to LinkML |
knowledge-graph, linkml, linkml-schema... | 7 (details) | vladistan/linkml-qudt |
| SemanticDataLink The Semantic Data Link repository hosts a Streamlit-based web application designed for managing and ... |
7 (details) | GX4FM-Base-X/SemanticDataLink | |
| CultureMech Microbial Culture Media Knowledge Graph - Comprehensive collection of 10,000+ culture media recipes ... |
6 (details) | CultureBotAI/CultureMech | |
| DCAT-ap_as_LinkML_template | 6 (details) | HendrikBorgelt/DCAT-ap_as_LinkML_template | |
| gff-schema LinkML schema for GFF3, the Genome Feature Format |
bioinformatics, formats, genomics... | 6 (details) | biodatamodels/gff-schema |
| sample-annotator NMDC Sample Annotator |
annotator, environment-ontology, environmentontology... | 6 (details) | microbiomedata/sample-annotator |
| data-sheets-schema Datasheets for Datasets, as LinkML Schema |
5 (details) | bridge2ai/data-sheets-schema | |
| data-vocab Vocabulary and schemas for digital identity |
5 (details) | govuk-one-login/data-vocab | |
| erwartung Just what you expect from your electricity grid data. |
cgmes, cim, common-information-model... | 5 (details) | OFFIS-DIP/erwartung |
| mtg_ontology An ontology describing cards in Magic The Gathering. |
linkml, mtg, ontology... | 5 (details) | cmdoret/mtg_ontology |
| cim-to-linkml Generates LinkML schemas for packages in the CIM information model. |
4 (details) | Netbeheer-Nederland/cim-to-linkml | |
| data-utilities SAVED project - data processing tools for fish farms |
4 (details) | saved-models/data-utilities | |
| gen-linkml-profile LinkML schema profiler. |
4 (details) | Netbeheer-Nederland/gen-linkml-profile | |
| linkml-activitypub LinkML Schema representation of ActivityPub |
4 (details) | p2p-ld/linkml-activitypub | |
| model-card-schema LinkML rendering of model cards |
ai, bridge2ai, deep-learning... | 4 (details) | bridge2ai/model-card-schema |
| niceSmartCRM nicegui based Customer Relation Management tool |
4 (details) | BITPlan/niceSmartCRM | |
| nwb-linkml Translating NWB schema language to linkml |
4 (details) | p2p-ld/nwb-linkml | |
| sepio-linkml LinkML-based specification of the SEPIO information model. |
4 (details) | sepio-framework/sepio-linkml | |
| bertron-schema LinkML schema for BERtron project. |
3 (details) | ber-data/bertron-schema | |
| cde-harmonization Initial private repo for P1 CDE harmonization |
3 (details) | monarch-initiative/cde-harmonization | |
| eco-kg | 3 (details) | Knowledge-Graph-Hub/eco-kg | |
| include-linkml LinkML Schema for INCLUDE DCC |
3 (details) | include-dcc/include-linkml | |
| KGQA-COVID | 3 (details) | MrBearWithHisSword/KGQA-COVID | |
| miiid-schema A metadata schema for the Minimum Information about Intermicrobial Interaction Data (MIIID) using Li... |
fair-data, linkml, linkml-schema... | 3 (details) | FAIR-MI/miiid-schema |
| OpenCloning_LinkML A LinkML data model for OpenCloning |
3 (details) | OpenCloning/OpenCloning_LinkML | |
| pandasaurus_cxg Ontology enrichment tool for CxG standard AnnData files |
3 (details) | INCATools/pandasaurus_cxg | |
| pid4cat-model Handle-based PIDs with a rich LinkML metadata model for resources in catalysis (PID4Cat) |
handles, linkml, linkml-schema... | 3 (details) | nfdi4cat/pid4cat-model |
| PPODLinkML A LinkML representation of the PPOD schema |
3 (details) | adhollander/PPODLinkML | |
| bia-mifa-models | 2 (details) | BioImage-Archive/bia-mifa-models | |
| biostride BioStructures Image Database and Experiments Schema |
2 (details) | cmungall/biostride | |
| brc-schema LinkML schema repo for bioenergy.org data integration |
linkml-schema | 2 (details) | bioenergy-research-centers/brc-schema |
| collections2efi Code used at Stiftung Deutsche Kinemathek to register AVefi compliant PIDs for collections on record... |
2 (details) | AV-EFI/collections2efi | |
| DataExchange-ODM-LinkML LinkML related work for ODMv2 |
data-exchange-standard | 2 (details) | cdisc-org/DataExchange-ODM-LinkML |
| external-metadata-awareness Tools for fetching and processing external schemas, ontologies and metadata records. Includes value ... |
2 (details) | microbiomedata/external-metadata-awareness | |
| idr_metadata_model | 2 (details) | German-BioImaging/idr_metadata_model | |
| mapping-suite-sdk SDK designed to standardize and simplify the handling of packages that contain transformation rules ... |
2 (details) | meaningfy-ws/mapping-suite-sdk | |
| monarch-project-copier New template for monarch repos, replaces old cookiecutter |
2 (details) | monarch-initiative/monarch-project-copier | |
| monarch-provenance | 2 (details) | matentzn/monarch-provenance | |
| phenio-toolkit | 2 (details) | souzadevinicius/phenio-toolkit | |
| cas-tools Cell Annotation Schema Tools |
1 (details) | cellannotation/cas-tools | |
| comet | 1 (details) | cmungall/comet | |
| ConnectsCommonConnectivity A repository to organize data models and code for creating a pilot common connectiivty matrix for BR... |
1 (details) | AllenInstitute/ConnectsCommonConnectivity | |
| data-dictionary Data dictionary to be used with DCA |
1 (details) | eliteportal/data-dictionary | |
| go-library | 1 (details) | geneontology/go-library | |
| htan2-data-model Data Model for HTAN Phase 2 |
1 (details) | ncihtan/htan2-data-model | |
| kg-envpolyreg | 1 (details) | Knowledge-Graph-Hub/kg-envpolyreg | |
| knowledge-graph | 1 (details) | genophenoenvo/knowledge-graph | |
| modos-schema Metadata schema for the Multi-Omics Digital-Object |
1 (details) | sdsc-ordes/modos-schema | |
| mofdscribe-schema | 1 (details) | kjappelbaum/mofdscribe-schema | |
| oakx-oger OGER plugin for oaklib. |
1 (details) | hrshdhgd/oakx-oger | |
| omop-link linkML model of OMOP Common Data Model |
1 (details) | SPHERE-Cancer-CAG/omop-link | |
| SketchML :whale: SketchML - distributed Machine Leaning framework for Apache Flink :star: |
1 (details) | axenov/SketchML | |
| smpdb-beacon | 1 (details) | NCATS-Tangerine/smpdb-beacon | |
| submission-schema The NMDC submission schema |
1 (details) | microbiomedata/submission-schema | |
| automate_mappings | 0 (details) | sierra-moxon/automate_mappings | |
| bridge-schemas | 0 (details) | cmungall/bridge-schemas | |
| cell-annotation-schema A general, open-standard schema for cell annotations and related metadata. |
0 (details) | Cellular-Semantics/cell-annotation-schema | |
| code-research Repository for allowing autonomous coding agents to experiment and build |
0 (details) | seandavi/code-research | |
| cs-archive A comprehensive CS knowledge hub with 20+ curated categories for students - skills, resources, proje... |
0 (details) | dharunashokkumar/cs-archive | |
| DataMetadataWorkflowDocs Documentation for In2PrimateBrains Data and Metadata Workflows |
0 (details) | In2PrimateBrains/DataMetadataWorkflowDocs | |
| edd-schema | 0 (details) | cmungall/edd-schema | |
| hgnc-sssom | 0 (details) | monarch-initiative/hgnc-sssom | |
| in2pb-linkml-test | 0 (details) | ree-gupta/in2pb-linkml-test | |
| linkml-cfde EXPERIMENTAL rendering of Common Fund Data Ecocystem as LinkML |
0 (details) | cmungall/linkml-cfde | |
| linkml-enhanced-template Linkml template playground |
0 (details) | hsolbrig/linkml-enhanced-template | |
| linkml-playground linkml-playground |
0 (details) | manulera/linkml-playground | |
| mixs-missing-value-sandbox experimentation with formal representations of missing data |
0 (details) | GenomicsStandardsConsortium/mixs-missing-value-sandbox | |
| ontology_to_schema | 0 (details) | liuji1031/ontology_to_schema | |
| OSLO2LINKML | 0 (details) | samuvack/OSLO2LINKML | |
| PCDMLinkML Portland Common Data Model, in LinkML |
0 (details) | multimeric/PCDMLinkML | |
| predicates code for querying and reporting on predicate use via smart-api registry meta_knowledge_graph endpoin... |
0 (details) | sierra-moxon/predicates | |
| rhea-beacon Knowledge Beacon wrapper for the Rhea Annotated Reactions database (https://www.rhea-db.org) |
0 (details) | NCATS-Tangerine/rhea-beacon | |
| schema-automator-monarch | 0 (details) | sierra-moxon/schema-automator-monarch | |
| slides collectin my slides instead of having them be all over everywhere |
0 (details) | sneakers-the-rat/slides | |
| SRI_testing | 0 (details) | TranslatorSRI/SRI_testing | |
| synbio-schema A schema for synthetic biology, inspired by IARPA FELIX |
0 (details) | iarpa-felix/synbio-schema | |
| tkg-beacon Knowledge Beacon wrapper of a Translator Knowledge Graph data model compliant Neo4j Database |
0 (details) | NCATS-Tangerine/tkg-beacon | |
| tmpl-cm Template repository for conceptual models. |
0 (details) | Netbeheer-Nederland/tmpl-cm | |
| variant-functional-assay Evidence (by experimental assay) of the functional effect of a genetic variant |
0 (details) | clingen-data-model/variant-functional-assay | |
| vrs_linkml LinkML Version of the GA4GH Variation Representation Specification |
0 (details) | sierra-moxon/vrs_linkml |