LinkML Registry
For more information on LinkML:
Registry Entries
| Title | Topics | Stars | GitHub URL |
|---|---|---|---|
| ontogpt LLM-based ontological extraction tools, including SPIRES |
843 (details) | monarch-initiative/ontogpt | |
| semantic-python-overview (subjective) overview of projects which are related both to python and semantic technologies (RDF, O... |
551 (details) | pysemtec/semantic-python-overview | |
| mondo Mondo Disease Ontology |
297 (details) | monarch-initiative/mondo | |
| go-ontology Source ontology files for the Gene Ontology |
241 (details) | geneontology/go-ontology | |
| biolink-model Schema and generated objects for biolink data model and upper ontology |
ai4curation, biolink, datamodel... | 231 (details) | biolink/biolink-model |
| ITK-Wasm High performance spatial analysis in a web browser and across programming languages and hardware arc... |
227 (details) | InsightSoftwareConsortium/ITK-Wasm | |
| sssom Simple Standard for Sharing Ontology Mappings |
linkml, mapping, mapping-commons... | 191 (details) | mapping-commons/sssom |
| ontology-access-kit Ontology Access Kit: A python library and command line application for working with ontologies |
163 (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... | 122 (details) | cidgoh/DataHarmonizer |
| obo-relations RO is an ontology of relations for use with biological ontologies |
110 (details) | oborel/obo-relations | |
| kg-covid-19 An instance of KG Hub to produce a knowledge graph for COVID-19 response. |
84 (details) | Knowledge-Graph-Hub/kg-covid-19 | |
| koza Data transformation framework for LinkML data models |
etl, knowledge-graph, koza... | 63 (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... | 61 (details) | mapping-commons/sssom-py |
| semantic-sql SQL and SQLite builds of OWL ontologies |
ai4curation, linkml, monarchinitiative... | 60 (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 | |
| artificial-intelligence-ontology An ontology modeling classes and relationships describing deep learning networks, their component la... |
47 (details) | berkeleybop/artificial-intelligence-ontology | |
| specification Margo Specification |
47 (details) | margo/specification | |
| nmdc-schema National Microbiome Data Collaborative (NMDC) unified data model |
ecoinformatics, fair-data, genomics... | 46 (details) | microbiomedata/nmdc-schema |
| alhazen AI agents + toolkits for scientific knowledge |
39 (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... | 30 (details) | cmungall/semantic-llama |
| kg-registry A registry of Knowledge Graphs, their data sources, and the ways they fit together. |
24 (details) | Knowledge-Graph-Hub/kg-registry | |
| monarch-ingest Data ingest application for Monarch Initiative knowledge graph using Koza |
kgx, knowledge-graphs, linkml... | 24 (details) | monarch-initiative/monarch-ingest |
| nwb_hackathons Repository for collecting materials from nwb hackathons |
24 (details) | NeurodataWithoutBorders/nwb_hackathons | |
| 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 |
| comp-loinc Computational LOINC in OWL. |
18 (details) | loinc/comp-loinc | |
| dismech Disease Mechanisms KB |
16 (details) | monarch-initiative/dismech | |
| monochrom Standardized identifiers and OWL classes for chromosomes and chromosomal parts across species |
ai4curation, chromosomes, etl... | 16 (details) | monarch-initiative/monochrom |
| ghga-metadata-schema Metadata schema for the German Human Genome-Phenome Archive (GHGA) |
fega, ghga, linkml... | 15 (details) | ghga-de/ghga-metadata-schema |
| markdown-corpus Many markdown files taken from around github |
13 (details) | tcr/markdown-corpus | |
| namo | ai4curation, artificial-intelligence, linkml... | 13 (details) | monarch-initiative/namo |
| agr_curation_schema Schema repository for the Alliance of Genome Resources persistent data store |
12 (details) | alliance-genome/agr_curation_schema | |
| 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... | 12 (details) | nfdi-de/chem-dcat-ap |
| 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 |
| tc57cim The CIM information model represented as LinkML schemas. |
cim, documentation | 9 (details) | Netbeheer-Nederland/tc57cim |
| cdm Altium Common Data Model |
8 (details) | AltiumDeveloper/cdm | |
| cgmes ENTSO-E CGMES profiles represented as LinkML schemas. |
cgmes, cim, documentation | 8 (details) | Netbeheer-Nederland/cgmes |
| CultureMech Microbial Culture Media Knowledge Graph - Comprehensive collection of 10,000+ culture media recipes ... |
cultivation, growth-media, media... | 8 (details) | CultureBotAI/CultureMech |
| define-json A metadata exchange model for Data Contracts and specs. Simplified successor to Define-XML that link... |
8 (details) | TeMeta/define-json | |
| linkml-qudt Conversion of QUDT ontology to LinkML |
knowledge-graph, linkml, linkml-schema... | 8 (details) | vladistan/linkml-qudt |
| 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 | |
| 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 | |
| wot-thing-description-toolchain-tmp work area for WoT Thing Description toolchain |
7 (details) | w3c/wot-thing-description-toolchain-tmp | |
| linkml-omop-tutorial | 6 (details) | alabarga/linkml-omop-tutorial | |
| ai-blame Extract provenance/audit trails from AI agent execution traces |
5 (details) | ai4curation/ai-blame | |
| 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 | |
| kgviz-model Schema for configurations / stylesheets for visualizing ontology and KGs |
5 (details) | berkeleybop/kgviz-model | |
| 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 |
| 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 |
| prefixcommons-py Prefix commons python utlities |
5 (details) | prefixcommons/prefixcommons-py | |
| sepio-linkml LinkML-based specification of the SEPIO information model. |
5 (details) | sepio-framework/sepio-linkml | |
| sssom-curator Prediction and curation of semantic mappings in SSSOM |
5 (details) | cthoyt/sssom-curator | |
| 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. |
cim | 4 (details) | Netbeheer-Nederland/cim-to-linkml |
| 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 |
| 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 | |
| bertron-schema LinkML schema for BERtron project. |
3 (details) | ber-data/bertron-schema | |
| DEPRECATED_agr_persistent_schema Repository using linkml templating system for generating Alliance of Genome Resources persistent dat... |
linkml | 3 (details) | alliance-genome/DEPRECATED_agr_persistent_schema |
| hprc-data-explorer | 3 (details) | human-pangenomics/hprc-data-explorer | |
| 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 |
| mifc A minimum information standard checklist formalizing the description of food composition data and re... |
3 (details) | kaiiam/mifc | |
| 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 | |
| translator-ingests NCATS Biomedical Data Translator Data INGest and Operations WG consolidated data ingest pipeline pro... |
3 (details) | NCATSTranslator/translator-ingests | |
| bia-mifa-models | 2 (details) | BioImage-Archive/bia-mifa-models | |
| htan2-data-model Data Model for HTAN Phase 2 |
2 (details) | ncihtan/htan2-data-model | |
| mapping-commons.github.io Repo for the user facing documentation of mapping-commons |
2 (details) | mapping-commons/mapping-commons.github.io | |
| metadata-schema Metadata schema describing electrochemical data |
2 (details) | echemdb/metadata-schema | |
| monarch-provenance | 2 (details) | matentzn/monarch-provenance | |
| owl-schema schema for OWL in LinkML |
2 (details) | cmungall/owl-schema | |
| phenio-toolkit | 2 (details) | souzadevinicius/phenio-toolkit | |
| bridge-schemas | 1 (details) | cmungall/bridge-schemas | |
| cas-tools Cell Annotation Schema Tools |
1 (details) | cellannotation/cas-tools | |
| comet | 1 (details) | cmungall/comet | |
| edd-schema | 1 (details) | cmungall/edd-schema | |
| github-helperbot AI Agent to research and search for projects on GitHub |
1 (details) | arjunmaganti/github-helperbot | |
| go-library | 1 (details) | geneontology/go-library | |
| metadata_converter Conversion of schemas/templates/metadata to biolinkml |
1 (details) | microbiomedata/metadata_converter | |
| modos-schema Metadata schema for the Multi-Omics Digital-Object |
1 (details) | sdsc-ordes/modos-schema | |
| mofdscribe-schema | 1 (details) | kjappelbaum/mofdscribe-schema | |
| NHLBI-BDC-DMC-HV BDC Harmonized Variables |
1 (details) | RTIInternational/NHLBI-BDC-DMC-HV | |
| obo-metadata EXPERIMENTAL obo metadata repo |
1 (details) | cmungall/obo-metadata | |
| portable-microhaplotype-object A schema to define the minimum amount of data needed to export a microhaplotype calling pipeline ana... |
1 (details) | PlasmoGenEpi/portable-microhaplotype-object | |
| schemalink-webapp Source code for the webapp of the Schemalink project |
1 (details) | AnacletoLAB/schemalink-webapp | |
| SketchML :whale: SketchML - distributed Machine Leaning framework for Apache Flink :star: |
1 (details) | axenov/SketchML | |
| 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 | |
| automate_mappings | 0 (details) | sierra-moxon/automate_mappings | |
| cell-annotation-schema A general, open-standard schema for cell annotations and related metadata. |
0 (details) | Cellular-Semantics/cell-annotation-schema | |
| DataMetadataWorkflowDocs Documentation for In2PrimateBrains Data and Metadata Workflows |
0 (details) | In2PrimateBrains/DataMetadataWorkflowDocs | |
| entity-resolution-spec Formal software contract, shared data models, sample messages, and compliance tests required for int... |
0 (details) | OP-TED/entity-resolution-spec | |
| linkml-cfde EXPERIMENTAL rendering of Common Fund Data Ecocystem as LinkML |
0 (details) | cmungall/linkml-cfde | |
| linkml-examples Tests and examples of linkml |
0 (details) | rsc3/linkml-examples | |
| linkml-gen-something-functional Fragments of schemas including features that may not work with all genrated artifacts |
0 (details) | turbomam/linkml-gen-something-functional | |
| linkml-integration Integration tests for linkml |
0 (details) | hsolbrig/linkml-integration | |
| LinkML-Project-Cookiecutter This project is from the LinkML tutorial at ISMB 2024 |
0 (details) | lmnb2055/LinkML-Project-Cookiecutter | |
| linkml_test | 0 (details) | alschaap/linkml_test | |
| monarch-kg-qc-schema Schema for QC Reports on the Monarch KG |
0 (details) | amc-corey-cox/monarch-kg-qc-schema | |
| ontology_to_schema | 0 (details) | liuji1031/ontology_to_schema | |
| oregon-water-samples Sample LinkML project setup for 2024 paper figures |
0 (details) | sierra-moxon/oregon-water-samples | |
| PCDMLinkML Portland Common Data Model, in LinkML |
0 (details) | multimeric/PCDMLinkML | |
| plugin-rosetta Integration of information models, schemas and mappings in LinkML |
0 (details) | plugin-healthcare/plugin-rosetta | |
| runoak_on_pombase runoak on PomBase data |
0 (details) | pombase/runoak_on_pombase | |
| schema-automator-monarch | 0 (details) | sierra-moxon/schema-automator-monarch | |
| synbio-schema A schema for synthetic biology, inspired by IARPA FELIX |
0 (details) | iarpa-felix/synbio-schema | |
| test-linkml-project-copier Test project created from copier template |
0 (details) | dalito/test-linkml-project-copier | |
| transient-heat-transfer-analysis-model Demo m30ml project for conducting a transient heat transfer analysis |
0 (details) | multiplanetaryhomestead/transient-heat-transfer-analysis-model | |
| vrs_linkml LinkML Version of the GA4GH Variation Representation Specification |
0 (details) | sierra-moxon/vrs_linkml |