LinkML Registry
For more information on LinkML:
Registry Entries
| Title | Topics | Stars | GitHub URL |
|---|---|---|---|
| cs249r_book Machine Learning Systems |
23706 (details) | harvard-edge/cs249r_book | |
| ontogpt LLM-based ontological extraction tools, including SPIRES |
859 (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 | |
| ontology-development-kit Ontology lifecycle management |
321 (details) | INCATools/ontology-development-kit | |
| mondo Mondo Disease Ontology |
298 (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... | 233 (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 | |
| pydna Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination,... |
222 (details) | pydna-group/pydna | |
| sssom Simple Standard for Sharing Ontology Mappings |
linkml, mapping, mapping-commons... | 194 (details) | mapping-commons/sssom |
| ontology-access-kit Ontology Access Kit: A python library and command line application for working with ontologies |
165 (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... | 125 (details) | cidgoh/DataHarmonizer |
| obo-relations RO is an ontology of relations for use with biological ontologies |
111 (details) | oborel/obo-relations | |
| CoreMS CoreMS is a comprehensive mass spectrometry software framework |
65 (details) | EMSL-Computing/CoreMS | |
| 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 | |
| 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 | |
| nmdc-schema National Microbiome Data Collaborative (NMDC) unified data model |
ecoinformatics, fair-data, genomics... | 46 (details) | microbiomedata/nmdc-schema |
| matrix | 42 (details) | everycure-org/matrix | |
| 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 |
| COSMoS CDISC Conceptual and Operational Standards Metadata Services (COSMoS) |
26 (details) | cdisc-org/COSMoS | |
| kg-registry A registry of Knowledge Graphs, their data sources, and the ways they fit together. |
25 (details) | Knowledge-Graph-Hub/kg-registry | |
| nwb_hackathons Repository for collecting materials from nwb hackathons |
25 (details) | NeurodataWithoutBorders/nwb_hackathons | |
| 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 |
| cogs Convention-based Ontology Generation System |
21 (details) | Colectica/cogs | |
| 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 |
18 (details) | monarch-initiative/dismech | |
| ddimodel Model for DDI Lifecycle |
16 (details) | ddialliance/ddimodel | |
| 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 |
| political-affairs-ech-group The working repository to develop standards for the swiss political system. |
16 (details) | swiss/political-affairs-ech-group | |
| b2ai-standards-registry Bridge2AI Standards Registry data models, API specification, and other documentation. |
15 (details) | bridge2ai/b2ai-standards-registry | |
| reusabledata The home repository for the (Re)usable Data Project. |
14 (details) | reusabledata/reusabledata | |
| 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... | 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 |
| translator-openpredict 🔮🐍 A package to help serve predictions of biomedical concepts associations as Translator Reasoner AP... |
12 (details) | MaastrichtU-IDS/translator-openpredict | |
| 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 |
| mondo-ingest Coordinating the mondo-ingest with external sources |
11 (details) | monarch-initiative/mondo-ingest | |
| tc57cim The CIM information model represented as LinkML schemas. |
cim, documentation | 10 (details) | Netbeheer-Nederland/tc57cim |
| 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 |
| monarch-documentation Technical documentation for all Monarch applications, packages, services and related projects. |
8 (details) | monarch-initiative/monarch-documentation | |
| reactome-ontology Ontology-first LinkML schema for Reactome with generated Python models, ontology artifacts, mappings... |
8 (details) | cair2015/reactome-ontology | |
| structsense | 8 (details) | sensein/structsense | |
| gff-schema LinkML schema for GFF3, the Genome Feature Format |
bioinformatics, formats, genomics... | 7 (details) | biodatamodels/gff-schema |
| nmdc-runtime Runtime system for NMDC data management and orchestration |
7 (details) | microbiomedata/nmdc-runtime | |
| 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 | |
| DCAT-ap_as_LinkML_template | 6 (details) | HendrikBorgelt/DCAT-ap_as_LinkML_template | |
| mtg_ontology An ontology describing cards in Magic The Gathering. |
6 (details) | cmdoret/mtg_ontology | |
| NHLBI-BDC-DMC-HM BioData Catalyst Harmonized Model |
6 (details) | RTIInternational/NHLBI-BDC-DMC-HM | |
| sepio-linkml LinkML-based specification of the SEPIO information model. |
6 (details) | sepio-framework/sepio-linkml | |
| 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 | |
| information-resource-registry The information resource registry is a listing of data sources present in the NCATS Data Translator ... |
5 (details) | biolink/information-resource-registry | |
| 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 |
| prefixcommons-py Prefix commons python utlities |
5 (details) | prefixcommons/prefixcommons-py | |
| regen-data-standards | 5 (details) | regen-network/regen-data-standards | |
| 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 | |
| dynamic-model-var-docs Front-end React app for exploring model schema and variables that use it |
4 (details) | Sigfried/dynamic-model-var-docs | |
| gen-linkml-profile LinkML schema profiler. |
4 (details) | Netbeheer-Nederland/gen-linkml-profile | |
| hra-do-processor hra-do-processor: HRA Digital Objects Processor |
4 (details) | hubmapconsortium/hra-do-processor | |
| 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 | |
| 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 |
| microbial-lims Metadata definitions for microbial strain research at NIST |
3 (details) | usnistgov/microbial-lims | |
| 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 | |
| standards-schemas Data schema for Bridge2AI Standards. |
3 (details) | bridge2ai/standards-schemas | |
| translator-ingests NCATS Biomedical Data Translator Data INGest and Operations WG consolidated data ingest pipeline pro... |
3 (details) | NCATSTranslator/translator-ingests | |
| BDP-Ontology | 2 (details) | hsolbrig/BDP-Ontology | |
| Explanatory-Agent | 2 (details) | NCATSTranslator/Explanatory-Agent | |
| gaganyatri.in Gaganyatri - Space Operations for Mars Transfer |
2 (details) | slabstech/gaganyatri.in | |
| htan2-data-model Data Model for HTAN Phase 2 |
2 (details) | ncihtan/htan2-data-model | |
| linkml-initializer | 2 (details) | pkalita-lbl/linkml-initializer | |
| metadata-schema Metadata schema describing electrochemical data |
2 (details) | echemdb/metadata-schema | |
| monarch-provenance | 2 (details) | matentzn/monarch-provenance | |
| nmdc-ai-eval Framework and data for performing evaluations for AI-powered NMDC tools. |
2 (details) | microbiomedata/nmdc-ai-eval | |
| 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 | |
| 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 | |
| ghga-validator | 1 (details) | ghga-de/ghga-validator | |
| github-helperbot AI Agent to research and search for projects on GitHub |
1 (details) | arjunmaganti/github-helperbot | |
| 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 | |
| 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 | |
| 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 | |
| resume-model m30ml example project for rendering a resume |
1 (details) | goldfishlaser/resume-model | |
| 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 | |
| arcZcode Architecture as Code |
0 (details) | Sveino/arcZcode | |
| 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 | |
| CPKG Translation tools for ClinicalProfile to Knowledge Graphs |
0 (details) | NCATS-Tangerine/CPKG | |
| DataMetadataWorkflowDocs Documentation for In2PrimateBrains Data and Metadata Workflows |
0 (details) | In2PrimateBrains/DataMetadataWorkflowDocs | |
| EssDiveSampleRF | 0 (details) | heycatwonton/EssDiveSampleRF | |
| ghp-vocab Vocabulary for Good Health Pass |
0 (details) | mukundanps/ghp-vocab | |
| hoopla | 0 (details) | cmungall/hoopla | |
| im-measurement Measurement Profile |
0 (details) | ritger-alliander/im-measurement | |
| 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 | |
| LinkML-Project-Cookiecutter This project is from the LinkML tutorial at ISMB 2024 |
0 (details) | lmnb2055/LinkML-Project-Cookiecutter | |
| linkml-tutorial-1 my new linkml project! |
0 (details) | sierra-moxon/linkml-tutorial-1 | |
| linkml-tutorial-2024 | 0 (details) | dbujold/linkml-tutorial-2024 | |
| minimal-metab A LinkML cookiecutter repo for modelling metabolomics from the ground up |
0 (details) | microbiomedata/minimal-metab | |
| Ontology-Metadata A schema for ontology metadata (WIP) |
0 (details) | StroemPhi/Ontology-Metadata | |
| 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 | |
| reproschema-protocol-cookiecutter A cookiecutter for reproschema protocols. |
0 (details) | ReproNim/reproschema-protocol-cookiecutter | |
| research-paper-schema | 0 (details) | liuji1031/research-paper-schema | |
| schema-automator-monarch | 0 (details) | sierra-moxon/schema-automator-monarch | |
| 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 | |
| slides collectin my slides instead of having them be all over everywhere |
0 (details) | sneakers-the-rat/slides | |
| stoplight_harmonization_project A toy model for prototyping and demonstrating LinkML based data harmonization |
0 (details) | hsolbrig/stoplight_harmonization_project | |
| synbio-schema A schema for synthetic biology, inspired by IARPA FELIX |
0 (details) | iarpa-felix/synbio-schema | |
| tccm-api | 0 (details) | timsbiomed/tccm-api | |
| template-fun-model Demo |
0 (details) | hsolbrig/template-fun-model | |
| vrs_linkml LinkML Version of the GA4GH Variation Representation Specification |
0 (details) | sierra-moxon/vrs_linkml |