LinkML Registry
For more information on LinkML:
Registry Entries
| Title | Topics | Stars | GitHub URL |
|---|---|---|---|
| ontogpt LLM-based ontological extraction tools, including SPIRES |
807 (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... | 224 (details) | biolink/biolink-model |
| sssom Simple Standard for Sharing Ontology Mappings |
linkml, mapping, mapping-commons... | 186 (details) | mapping-commons/sssom |
| ontology-access-kit Ontology Access Kit: A python library and command line application for working with ontologies |
160 (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 |
| kg-covid-19 An instance of KG Hub to produce a knowledge graph for COVID-19 response. |
85 (details) | Knowledge-Graph-Hub/kg-covid-19 | |
| koza Data transformation framework for LinkML data models |
etl, knowledge-graph, koza... | 63 (details) | monarch-initiative/koza |
| sssom-py Python toolkit for SSSOM mapping format |
linkml, mappings, obofoundry... | 60 (details) | mapping-commons/sssom-py |
| semantic-sql SQL and SQLite builds of OWL ontologies |
ai4curation, linkml, monarchinitiative... | 57 (details) | INCATools/semantic-sql |
| hdmf The Hierarchical Data Modeling Framework |
56 (details) | hdmf-dev/hdmf | |
| artificial-intelligence-ontology An ontology modeling classes and relationships describing deep learning networks, their component la... |
44 (details) | berkeleybop/artificial-intelligence-ontology | |
| nmdc-schema National Microbiome Data Collaborative (NMDC) unified data model |
ecoinformatics, fair-data, genomics... | 44 (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... | 29 (details) | cmungall/semantic-llama |
| cogs Convention-based Ontology Generation System |
21 (details) | Colectica/cogs | |
| kgcl Datamodel for KGCL (Knowledge Graph Change Language) |
kgcl, linkml, ontology-changes... | 21 (details) | INCATools/kgcl |
| monarch-ingest Data ingest application for Monarch Initiative knowledge graph using Koza |
kgx, knowledge-graphs, linkml... | 21 (details) | monarch-initiative/monarch-ingest |
| chemrof Schema for chemistry ontology classes |
chebi, chemistry, linkml... | 20 (details) | chemkg/chemrof |
| py-typedlogic Logic plus python types |
answer-set-programming, clif, clingo... | 20 (details) | py-typedlogic/py-typedlogic |
| kgcl-rdflib Tools for working with KGCL |
diff, diffs, kg... | 19 (details) | INCATools/kgcl-rdflib |
| 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 | |
| monochrom Standardized identifiers and OWL classes for chromosomes and chromosomal parts across species |
ai4curation, chromosomes, etl... | 15 (details) | monarch-initiative/monochrom |
| ghga-metadata-schema Metadata schema for the German Human Genome-Phenome Archive (GHGA) |
fega, ghga, linkml... | 14 (details) | ghga-de/ghga-metadata-schema |
| 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 | |
| namo | ai4curation, artificial-intelligence, linkml... | 12 (details) | monarch-initiative/namo |
| json-flattener Python library for denormalizing nested dicts or json objects to tables and back |
dataframes, denormalization, linkml... | 11 (details) | cmungall/json-flattener |
| 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... | 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... |
dcat-ap, linkml, linkml-schema... | 9 (details) | nfdi-de/dcat-ap-plus |
| linkml-phenopackets EXPERIMENTAL rendering of phenopackets in linkml |
human-phenotype-ontology, linkml, metadata... | 9 (details) | cmungall/linkml-phenopackets |
| tc57cim The CIM information model represented as LinkML schemas. |
9 (details) | Netbeheer-Nederland/tc57cim | |
| define-json A metadata exchange model for Data Contracts and specs. Simplified successor to Define-XML that link... |
8 (details) | TeMeta/define-json | |
| InfDB infDB (Infrastructure and Energy Database) provides a modular and easy-to-configure open-source dat... |
8 (details) | tum-ens/InfDB | |
| rarelink RareLink - A REDCap-based framework linking international registries to FHIR and Phenopackets |
8 (details) | BIH-CEI/rarelink | |
| structsense | 8 (details) | sensein/structsense | |
| CultureMech Microbial Culture Media Knowledge Graph - Comprehensive collection of 10,000+ culture media recipes ... |
cultivation, growth-media, media... | 7 (details) | CultureBotAI/CultureMech |
| im-cgmes ENTSO-E CGMES profiles represented as LinkML schemas. |
7 (details) | Netbeheer-Nederland/im-cgmes | |
| 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 | |
| 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 |
| NHLBI-BDC-DMC-HM BioData Catalyst Harmonized Model |
6 (details) | RTIInternational/NHLBI-BDC-DMC-HM | |
| 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 | |
| gold-ontology | 5 (details) | cmungall/gold-ontology | |
| sepio-linkml LinkML-based specification of the SEPIO information model. |
5 (details) | sepio-framework/sepio-linkml | |
| BioPortal-to-KGX Assemble a BioPortal Knowledge Graph |
4 (details) | ncbo/BioPortal-to-KGX | |
| cim-to-linkml Generates LinkML schemas for packages in the CIM information model. |
4 (details) | Netbeheer-Nederland/cim-to-linkml | |
| czid-platformics | 4 (details) | chanzuckerberg/czid-platformics | |
| 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 | |
| mianct-schema Minimal Information About a New Cell Type |
4 (details) | cmungall/mianct-schema | |
| model-card-schema LinkML rendering of model cards |
ai, bridge2ai, deep-learning... | 4 (details) | bridge2ai/model-card-schema |
| nwb-linkml Translating NWB schema language to linkml |
4 (details) | p2p-ld/nwb-linkml | |
| obograph | 4 (details) | biodatamodels/obograph | |
| bertron-schema LinkML schema for BERtron project. |
3 (details) | ber-data/bertron-schema | |
| include-linkml LinkML Schema for INCLUDE DCC |
3 (details) | include-dcc/include-linkml | |
| mifc A minimum information standard checklist formalizing the description of food composition data and re... |
3 (details) | kaiiam/mifc | |
| 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 |
| 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 | |
| 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 | |
| brc-schema LinkML schema repo for bioenergy.org data integration |
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 | |
| external-metadata-awareness Tools for fetching and processing external schemas, ontologies and metadata records. Includes value ... |
2 (details) | microbiomedata/external-metadata-awareness | |
| htan2-data-model Data Model for HTAN Phase 2 |
2 (details) | ncihtan/htan2-data-model | |
| linkml-java LinkML runtime library for Java |
linkml, semantic-web | 2 (details) | gouttegd/linkml-java |
| linkml-toolkit | 2 (details) | genomewalker/linkml-toolkit | |
| metadata-schema Metadata schema describing electrochemical data |
2 (details) | echemdb/metadata-schema | |
| monarch-provenance | 2 (details) | matentzn/monarch-provenance | |
| oscem-schemas | 2 (details) | osc-em/oscem-schemas | |
| translator-ingests NCATS Biomedical Data Translator Data INGest and Operations WG consolidated data ingest pipeline pro... |
2 (details) | NCATSTranslator/translator-ingests | |
| cas-tools Cell Annotation Schema Tools |
1 (details) | cellannotation/cas-tools | |
| comet | 1 (details) | cmungall/comet | |
| KGraphPy KGraphPy is a Python library for working with knowledge graphs on top of RDFLib. |
1 (details) | statnett/KGraphPy | |
| linkml-data-dictionary Define the data dictionary using LinkML for data validation and reusable artifacts. (Proof of concep... |
1 (details) | chicagopcdc/linkml-data-dictionary | |
| linkml-tutorial-2024 | 1 (details) | hoodriverheather/linkml-tutorial-2024 | |
| metadata_converter Conversion of schemas/templates/metadata to biolinkml |
1 (details) | microbiomedata/metadata_converter | |
| mofdscribe-schema | 1 (details) | kjappelbaum/mofdscribe-schema | |
| nmdc-client A Python client for the National Microbiome Data Collaborative |
1 (details) | jeffbaumes/nmdc-client | |
| NMRspec Prototype to semantify NMR spectroscopy research data |
1 (details) | StroemPhi/NMRspec | |
| resume-model m30ml example project for rendering a resume |
1 (details) | goldfishlaser/resume-model | |
| sheet2linkml Python package for conversion of Google Sheet to LinkML for CCDH |
1 (details) | cancerDHC/sheet2linkml | |
| SketchML :whale: SketchML - distributed Machine Leaning framework for Apache Flink :star: |
1 (details) | axenov/SketchML | |
| tccm-model-lite | 1 (details) | timsbiomed/tccm-model-lite | |
| bdc-harmonized-variables LinkML-Map transformation specifications for BDC harmonized variables |
0 (details) | amc-corey-cox/bdc-harmonized-variables | |
| biotic-interactions LinkML model for biotic interactions - designed for use with OntoGPT |
0 (details) | diatomsRcool/biotic-interactions | |
| 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 | |
| conceptuele-informatiemodellen | 0 (details) | Netbeheer-Nederland/conceptuele-informatiemodellen | |
| DataMetadataWorkflowDocs Documentation for In2PrimateBrains Data and Metadata Workflows |
0 (details) | In2PrimateBrains/DataMetadataWorkflowDocs | |
| edd-schema | 0 (details) | cmungall/edd-schema | |
| foo-model | 0 (details) | hsolbrig/foo-model | |
| ghp-vocab Vocabulary for Good Health Pass |
0 (details) | mukundanps/ghp-vocab | |
| in2pb-linkml-test | 0 (details) | ree-gupta/in2pb-linkml-test | |
| jsonasobj Extension to the python json library that represents JSON as first class python objects. |
0 (details) | hsolbrig/jsonasobj | |
| linkml-cfde EXPERIMENTAL rendering of Common Fund Data Ecocystem as LinkML |
0 (details) | cmungall/linkml-cfde | |
| linkml-playground linkml-playground |
0 (details) | manulera/linkml-playground | |
| linkml_test | 0 (details) | alschaap/linkml_test | |
| PCDMLinkML Portland Common Data Model, in LinkML |
0 (details) | multimeric/PCDMLinkML | |
| pfhub-cli-old | 0 (details) | wd15/pfhub-cli-old | |
| semanticscience-model LinkML model for the SemanticScience Integrated Ontology |
0 (details) | vemonet/semanticscience-model | |
| synbio-schema A schema for synthetic biology, inspired by IARPA FELIX |
0 (details) | iarpa-felix/synbio-schema | |
| tccm-api | 0 (details) | timsbiomed/tccm-api | |
| test-answer-schema | 0 (details) | laurenechan/test-answer-schema | |
| vrs_linkml LinkML Version of the GA4GH Variation Representation Specification |
0 (details) | sierra-moxon/vrs_linkml | |
| zfin-genotype-to-phenotype-ingest | 0 (details) | monarch-initiative/zfin-genotype-to-phenotype-ingest |