Repositories list

• agri-schemas

  Public
  Development of schemas and ontologies for the agrifood, inspired to schema.org and bioschemas.

  Python

  •11 fork•66 stars•11 issue•66 pull requests•Updated Apr 16, 2026Apr 16, 2026

• knetminer-backend

  Public
  The new Knetminer backend, based on graph databases.

  Java

  •22 forks•00 stars•00 issues•11 pull request•Updated Apr 7, 2026Apr 7, 2026

• knetbuilder

  Public
  KnetBuilder data integration platform for building knowledge graphs. Previously known as ondex.

  Java

  •

  MIT License

  •1010 forks•1515 stars•66 issues•44 pull requests•Updated Apr 2, 2026Apr 2, 2026

• knetminer-common

  Public
  Parent POM for Knetminer projects, also containing common files.

  Shell

  •00 forks•22 stars•00 issues•33 pull requests•Updated Mar 27, 2026Mar 27, 2026

• rdf2pg

  Public
  tools to convert/load RDF into Neo4j

  Java

  •

  GNU Lesser General Public License v3.0

  •1010 forks•5454 stars•00 issues•55 pull requests•Updated Nov 28, 2025Nov 28, 2025

• knetminer

  Public
  KnetMiner - webapp to search and visualize genome-scale knowledge graphs

  JavaScript

  •

  MIT License

  •1717 forks•3030 stars•5353 issues•44 pull requests•Updated Sep 18, 2025Sep 18, 2025

• knetmaps.js

  Public
  KnetMaps: a BioJS component to visualize biological knowledge networks

  JavaScript

  •

  MIT License

  •66 forks•1010 stars•99 issues•1414 pull requests•Updated Apr 14, 2025Apr 14, 2025

• neo4j-server-maven-plugin

  Public
  Start and stop any version of Neo4j community server

  Java

  •

  Apache License 2.0

  •11 fork•00 stars•00 issues•11 pull request•Updated Jan 7, 2025Jan 7, 2025

• graphdb-benchmarks

  Public
  Application to benchmark Neo4j+Cypher/Virtuoso+SPARQL/ArcadeDB+Gremlin querying

  benchmarkneo4jsparql+ 4

  benchmarkneo4jsparqlrdfgraph-databasegremlinarcadedb

  Jupyter Notebook

  •55 forks•88 stars•11 issue•11 pull request•Updated Jun 23, 2024Jun 23, 2024

• knetgraphs-gene-traits

  Public
  Enrichment Analysis Use Cases. Tools to analyse plant biology knowledge graphs and find significant traits and bioprocess from gene expression sets. The project…

  pythonbinderjupyter-notebook+ 1

  pythonbinderjupyter-notebookneodash

  Jupyter Notebook

  •

  GNU Affero General Public License v3.0

  •11 fork•44 stars•00 issues•00 pull requests•Updated Nov 17, 2023Nov 17, 2023

• knetminer-testing

  Public
  Material about testing knetminer

  00 forks•00 stars•00 issues•00 pull requests•Updated Nov 15, 2023Nov 15, 2023

• knetminer-lodestar

  Public
  Knetminer-customised version of LODEStar

  JavaScript

  •

  Apache License 2.0

  •2121 forks•11 star•00 issues•1010 pull requests•Updated Oct 16, 2023Oct 16, 2023

• genomaps.js

  Public
  Interactive visualization of highdensity SNP, QTL, GWAS and gene data.

  JavaScript

  •

  MIT License

  •22 forks•1010 stars•55 issues•22 pull requests•Updated Oct 5, 2023Oct 5, 2023

• bioknet-onto

  Public
  The Bio Knowledge Network, powering knowledge graphs released by the Knetminer project

  XSLT

  •00 forks•44 stars•11 issue•00 pull requests•Updated May 25, 2023May 25, 2023

• easybuild-easyconfigs

  Public
  A collection of easyconfig files that describe which software to build using which build options with EasyBuild.

  Python

  •

  GNU General Public License v2.0

  •781781 forks•00 stars•00 issues•00 pull requests•Updated Apr 25, 2023Apr 25, 2023

• ondex-old-components

  Public
  ONDEX outdated components, which are not used anynmore.

  Java

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jan 26, 2023Jan 26, 2023

• knetminer-backend-doc

  Public
  Documentation, demos, presentations, etc for the Knetminer Data Backend.

  Jupyter Notebook

  •

  Other

  •00 forks•00 stars•00 issues•00 pull requests•Updated May 26, 2022May 26, 2022

• ondex-base

  Public archive
  Basic ONDEX components.

  Java

  •00 forks•11 star•00 issues•44 pull requests•Updated Feb 1, 2022Feb 1, 2022

• ondex-doc

  Public archive
  ONDEX Documentation.

  TeX

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jan 10, 2022Jan 10, 2022

• ondex-desktop

  Public archive
  ONDEX Desktop Applications.

  Java

  •11 fork•11 star•00 issues•22 pull requests•Updated Jan 10, 2022Jan 10, 2022

• ondex-opt

  Public archive
  ONDEX Optional Components.

  Java

  •00 forks•00 stars•00 issues•88 pull requests•Updated Jan 10, 2022Jan 10, 2022

• ondex-full

  Public archive
  Aggregator used to download and build all about ONDEX

  data-miningnetwork-graphdata-visualization+ 1

  data-miningnetwork-graphdata-visualizationdata-integration

  Shell

  •

  MIT License

  •11 fork•00 stars•00 issues•33 pull requests•Updated Jan 10, 2022Jan 10, 2022

• covid19-kg

  Public
  Documentation for the COVID-19 KnetGraph SPARQL and Cypher endpoints

  Python

  •

  GNU Affero General Public License v3.0

  •00 forks•22 stars•00 issues•00 pull requests•Updated Oct 14, 2021Oct 14, 2021

• knetminer-lightgraph

  Public archive
  Low RAM Knowledge Graphs for Knetminer

  Java

  •

  MIT License

  •00 forks•22 stars•00 issues•00 pull requests•Updated Sep 10, 2021Sep 10, 2021

• graphql-api

  Public
  KnetMiner Platform API BETA

  JavaScript

  •

  Apache License 2.0

  •11 fork•11 star•33 issues•00 pull requests•Updated Sep 8, 2021Sep 8, 2021

• kgraph-usecases

  Public
  A test project to develop Knetminer use cases about using raw data endpoints.

  Java

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 22, 2021Aug 22, 2021

• ProfileGenerator

  Public
  Experimental scripts for creating a new Bioschemas Profile

  Python

  •

  MIT License

  •33 forks•00 stars•00 issues•00 pull requests•Updated Apr 14, 2021Apr 14, 2021

• fculmorum-kg

  Public
  Fusarium culmorum KG ETLs for public access

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 30, 2020Sep 30, 2020

• wordcloud

  Public
  Python wordcloud example for knetminer viz

  Python

  •

  MIT License

  •11 fork•11 star•00 issues•00 pull requests•Updated Jul 28, 2020Jul 28, 2020

• knetminer-website

  Public
  KnetMiner website

  network-visualisationgraph-query

  network-visualisationgraph-query

  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 5, 2020Jun 5, 2020