LinkML Registry
For more information on LinkML:
Registry Entries
| Title | Topics | Stars | GitHub URL |
|---|---|---|---|
| ontogpt LLM-based ontological extraction tools, including SPIRES |
866 (details) | monarch-initiative/ontogpt | |
| biolink-model Schema and generated objects for biolink data model and upper ontology |
ai4curation, biolink, datamodel... | 235 (details) | biolink/biolink-model |
| sssom Simple Standard for Sharing Ontology Mappings |
linkml, mapping, mapping-commons... | 197 (details) | mapping-commons/sssom |
| DataHarmonizer A standardized browser-based spreadsheet editor and validator that can be run offline and locally, a... |
application, data, harmonization... | 126 (details) | cidgoh/DataHarmonizer |
| koza Data transformation framework for LinkML data models |
etl, knowledge-graph, koza... | 64 (details) | monarch-initiative/koza |
| mixs Minimum Information about any (X) Sequence” (MIxS) specification |
63 (details) | GenomicsStandardsConsortium/mixs | |
| sssom-py Python toolkit for SSSOM mapping format |
linkml, mappings, obofoundry... | 62 (details) | mapping-commons/sssom-py |
| semantic-sql SQL and SQLite builds of OWL ontologies |
ai4curation, linkml, monarchinitiative... | 60 (details) | INCATools/semantic-sql |
| hdmf The Hierarchical Data Modeling Framework |
56 (details) | hdmf-dev/hdmf | |
| nmdc-schema National Microbiome Data Collaborative (NMDC) unified data model |
ecoinformatics, fair-data, genomics... | 46 (details) | microbiomedata/nmdc-schema |
| semantic-llama A knowledge extraction tool that uses a large language model to extract semantic information from te... |
ai, knowledge-extraction, language-models... | 30 (details) | cmungall/semantic-llama |
| monarch-ingest Data ingest application for Monarch Initiative knowledge graph using Koza |
kgx, knowledge-graphs, linkml... | 24 (details) | monarch-initiative/monarch-ingest |
| chemrof Schema for chemistry ontology classes |
chebi, chemistry, linkml... | 23 (details) | chemkg/chemrof |
| kgcl Datamodel for KGCL (Knowledge Graph Change Language) |
kgcl, linkml, ontology-changes... | 22 (details) | INCATools/kgcl |
| py-typedlogic Logic plus python types |
answer-set-programming, clif, clingo... | 21 (details) | py-typedlogic/py-typedlogic |
| kgcl-rdflib Tools for working with KGCL |
diff, diffs, kg... | 20 (details) | INCATools/kgcl-rdflib |
| ccdhmodel CRDC-H model in LinkML, developed by the Center for Cancer Data Harmonization (CCDH) |
google-sheets, linkml | 18 (details) | cancerDHC/ccdhmodel |
| ghga-metadata-schema Metadata schema for the German Human Genome-Phenome Archive (GHGA) |
fega, ghga, linkml... | 16 (details) | ghga-de/ghga-metadata-schema |
| monochrom Standardized identifiers and OWL classes for chromosomes and chromosomal parts across species |
ai4curation, chromosomes, etl... | 16 (details) | monarch-initiative/monochrom |
| chem-dcat-ap This is an extension of the DCAT Application Profile PLUS LinkML schema. It is intended to be used b... |
linkml, linkml-schema, shacl... | 14 (details) | nfdi-de/chem-dcat-ap |
| namo | ai4curation, artificial-intelligence, linkml... | 14 (details) | monarch-initiative/namo |
| json-flattener Python library for denormalizing nested dicts or json objects to tables and back |
dataframes, denormalization, linkml... | 12 (details) | cmungall/json-flattener |
| dcat-ap-plus A domain-agnostic extension of the DCAT Application Profile. It allow providing domain-specific meta... |
dcat-ap, linkml, linkml-schema... | 11 (details) | nfdi-de/dcat-ap-plus |
| linkml-phenopackets EXPERIMENTAL rendering of phenopackets in linkml |
human-phenotype-ontology, linkml, metadata... | 11 (details) | cmungall/linkml-phenopackets |
| reactome-ontology Ontology-first LinkML schema for Reactome with generated Python models, ontology artifacts, mappings... |
10 (details) | cair2015/reactome-ontology | |
| tc57cim The CIM information model represented as LinkML schemas. |
cim, documentation | 10 (details) | Netbeheer-Nederland/tc57cim |
| CultureMech Microbial Culture Media Knowledge Graph - Comprehensive collection of 10,000+ culture media recipes ... |
cultivation, growth-media, media... | 9 (details) | CultureBotAI/CultureMech |
| lambda-ber-schema A comprehensive schema for representing multimodal structural biology imaging data. |
9 (details) | lambda-ber/lambda-ber-schema | |
| cgmes ENTSO-E CGMES profiles represented as LinkML schemas. |
cgmes, cim, documentation | 8 (details) | Netbeheer-Nederland/cgmes |
| linkml-qudt Conversion of QUDT ontology to LinkML |
knowledge-graph, linkml, linkml-schema... | 8 (details) | vladistan/linkml-qudt |
| monarch-documentation Technical documentation for all Monarch applications, packages, services and related projects. |
8 (details) | monarch-initiative/monarch-documentation | |
| gff-schema LinkML schema for GFF3, the Genome Feature Format |
bioinformatics, formats, genomics... | 7 (details) | biodatamodels/gff-schema |
| sample-annotator NMDC Sample Annotator |
annotator, environment-ontology, environmentontology... | 7 (details) | microbiomedata/sample-annotator |
| SemanticDataLink The Semantic Data Link repository hosts a Streamlit-based web application designed for managing and ... |
7 (details) | GX4FM-Base-X/SemanticDataLink | |
| sepio-linkml LinkML-based specification of the SEPIO information model. |
7 (details) | sepio-framework/sepio-linkml | |
| data-sheets-schema Datasheets for Datasets, as LinkML Schema |
6 (details) | bridge2ai/data-sheets-schema | |
| data-vocab Vocabulary and schemas for digital identity |
6 (details) | govuk-one-login/data-vocab | |
| mtg_ontology An ontology describing cards in Magic The Gathering. |
6 (details) | cmdoret/mtg_ontology | |
| linkml-java LinkML runtime library for Java |
linkml, semantic-web | 5 (details) | gouttegd/linkml-java |
| model-card-schema LinkML rendering of model cards |
ai, bridge2ai, deep-learning... | 5 (details) | bridge2ai/model-card-schema |
| obograph | 5 (details) | biodatamodels/obograph | |
| pid4cat-model Handle-based PIDs with a rich LinkML metadata model for resources in catalysis (PID4Cat) |
handles, linkml, linkml-schema... | 5 (details) | nfdi4cat/pid4cat-model |
| cim-to-linkml Generates LinkML schemas for packages in the CIM information model. |
cim | 4 (details) | Netbeheer-Nederland/cim-to-linkml |
| ConfIDent_schema The data schema for the ConfIDent project. |
4 (details) | TIBHannover/ConfIDent_schema | |
| 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 | |
| miiid-schema A metadata schema for the Minimum Information about Intermicrobial Interaction Data (MIIID) using Li... |
fair-data, linkml, linkml-schema... | 4 (details) | FAIR-MI/miiid-schema |
| mixs-source | 4 (details) | cmungall/mixs-source | |
| nwb-linkml Translating NWB schema language to linkml |
4 (details) | p2p-ld/nwb-linkml | |
| TermCI-model The Terminology Code Index Entry model |
4 (details) | timsbiomed/TermCI-model | |
| bertron-schema LinkML schema for BERtron project. |
3 (details) | ber-data/bertron-schema | |
| cdm-schema Schema files for the KBase CDM |
3 (details) | kbase/cdm-schema | |
| include-linkml LinkML Schema for INCLUDE DCC |
3 (details) | include-dcc/include-linkml | |
| linkml-pokemon Adaptation of Pokemon Knowledge Graph as LinkML Schema |
agentic-ai, knowledge-graph, linked-data... | 3 (details) | vladistan/linkml-pokemon |
| monarch-project-copier New template for monarch repos, replaces old cookiecutter |
3 (details) | monarch-initiative/monarch-project-copier | |
| OpenCloning_LinkML A LinkML data model for OpenCloning |
3 (details) | OpenCloning/OpenCloning_LinkML | |
| PPODLinkML A LinkML representation of the PPOD schema |
3 (details) | adhollander/PPODLinkML | |
| rdfsolve Generate, export and use RDF schemas. |
3 (details) | jmillanacosta/rdfsolve | |
| BDP-Ontology | 2 (details) | hsolbrig/BDP-Ontology | |
| brc-schema LinkML schema repo for bioenergy.org data integration |
2 (details) | bioenergy-research-centers/brc-schema | |
| Explanatory-Agent | 2 (details) | NCATSTranslator/Explanatory-Agent | |
| nmdc-metadata Managing metadata and policy around metadata in NMDC |
2 (details) | microbiomedata/nmdc-metadata | |
| NMRspec Prototype to semantify NMR spectroscopy research data |
2 (details) | StroemPhi/NMRspec | |
| ak-schema AIRR Knowledge Schema |
1 (details) | airr-knowledge/ak-schema | |
| beril-model A proposed LinkML schema in support of sample interoperability at the Department of Energy's Biologi... |
1 (details) | beril-model/beril-model | |
| hzb-catalysisLabs-schema A datamodel for describing entities and their semantic associations (e.g., mappings to vocabularies/... |
1 (details) | HZB-CE-DataSchemas/hzb-catalysisLabs-schema | |
| mofdscribe-schema | 1 (details) | kjappelbaum/mofdscribe-schema | |
| NHLBI-BDC-DMC-HV BDC Harmonized Variables |
1 (details) | RTIInternational/NHLBI-BDC-DMC-HV | |
| submission-schema The NMDC submission schema |
1 (details) | microbiomedata/submission-schema | |
| alspac-data-catalogue-schema This repo is for the schema of alspac data catalogues and meta data for alspac data sets |
0 (details) | alspac/alspac-data-catalogue-schema | |
| bbqs_projects_models | 0 (details) | sensein/bbqs_projects_models | |
| cets-data-models Contains the data models of the standard for cryo-electron tomography |
0 (details) | TomoBabel/cets-data-models | |
| CPKG Translation tools for ClinicalProfile to Knowledge Graphs |
0 (details) | NCATS-Tangerine/CPKG | |
| ghp-vocab Vocabulary for Good Health Pass |
0 (details) | mukundanps/ghp-vocab | |
| linkml-enhanced-template Linkml template playground |
0 (details) | hsolbrig/linkml-enhanced-template | |
| LinkML-Project-Cookiecutter This project is from the LinkML tutorial at ISMB 2024 |
0 (details) | lmnb2055/LinkML-Project-Cookiecutter | |
| minimal-metab A LinkML cookiecutter repo for modelling metabolomics from the ground up |
0 (details) | microbiomedata/minimal-metab | |
| mondo-ai | 0 (details) | semanticly-ai/mondo-ai | |
| nmdc-patterns | 0 (details) | sierra-moxon/nmdc-patterns | |
| pfhub-schema Phase-field simulation and benchmark schema in LinkML |
0 (details) | usnistgov/pfhub-schema | |
| semanticscience-model LinkML model for the SemanticScience Integrated Ontology |
0 (details) | vemonet/semanticscience-model | |
| sepio-models Shared SEPIO models based on the bioLinkML modeling language supporting the metakb and clingen sepio... |
0 (details) | clingen-data-model/sepio-models | |
| sphinx-needs-template | 0 (details) | mleist/sphinx-needs-template | |
| stoplight_harmonization_project A toy model for prototyping and demonstrating LinkML based data harmonization |
0 (details) | hsolbrig/stoplight_harmonization_project | |
| tank-schema | 0 (details) | turbomam/tank-schema | |
| tccm-api | 0 (details) | timsbiomed/tccm-api | |
| template-fun-model Demo |
0 (details) | hsolbrig/template-fun-model |