Repositories list

• write-rest-api-manual

  Public
  Guides for using REST API to create and update submissions in BioModels

  HTML

  •0•0•0•0•Updated Mar 29, 2026Mar 29, 2026

• repository-archives

  Public
  Archives for BioModels repository

  0•0•0•0•Updated Feb 11, 2026Feb 11, 2026

• CombineArchive

  Public
  A Java Library to support the manipulation of the Combine Archive

  javacombinearchive

  javacombinearchive

  Java

  •

  Other

  •3•0•2•0•Updated Feb 10, 2026Feb 10, 2026

• biomodels-utilities

  Public
  BioModels Utilities are used across applications in the team

  Java

  •0•0•1•0•Updated Feb 7, 2026Feb 7, 2026

• CombineExt

  Public
  Java library when working with COMBINE Archive

  java-8combinemimetype+ 2

  java-8combinemimetypeomexomex-metadata

  Java

  •

  GNU Lesser General Public License v3.0

  •3•0•1•0•Updated Feb 7, 2026Feb 7, 2026

• user-guide

  Public
  User guide for BioModels repository

  JavaScript

  •0•0•0•0•Updated Jul 2, 2025Jul 2, 2025

• ribs

  Public
  REST-based Interface for BioStudies

  JavaScript

  •4•0•0•0•Updated Apr 3, 2025Apr 3, 2025

• submission-tool

  Public
  New Submission Tool For BioStudies

  Vue

  •1•0•0•0•Updated Jan 22, 2025Jan 22, 2025

• BioStudyUISub

  Public
  Submission app for EMBL-EBI's BioStudies archive

  TypeScript

  •

  Apache License 2.0

  •1•0•0•0•Updated Jan 9, 2025Jan 9, 2025

• biomodels-resftful-api-client

  Public
  BioModels RESTful API - Web Services

  Python

  •

  Other

  •0•0•0•0•Updated Nov 30, 2024Nov 30, 2024

• temp-biomodels

  Public
  Temporary place for coordination of updating existing Biomodels

  Component Pascal

  •

  Creative Commons Zero v1.0 Universal

  •2•0•0•0•Updated Aug 27, 2024Aug 27, 2024

• author-list-generator

  Public
  Author List Generator for Scientific Papers

  Python

  •2•1•0•0•Updated Aug 23, 2024Aug 23, 2024

• python-petab-importer

  Public
  PEtab --> COPASI importer

  Python

  •

  Artistic License 2.0

  •1•0•0•0•Updated Apr 4, 2024Apr 4, 2024

• ols-client

  Public
  Java ols client designed for OLS-Dialog tool

  Java

  •7•0•0•0•Updated Nov 14, 2023Nov 14, 2023

• test-download

  Public
  downloadrest-api

  downloadrest-api

  Java

  •0•0•0•0•Updated Nov 2, 2023Nov 2, 2023

• FBCModelTests.jl

  Public
  Julia

  •

  Apache License 2.0

  •5•0•0•0•Updated Nov 2, 2023Nov 2, 2023

• SBO

  Public
  The Systems Biology Ontology (SBO) is a set of controlled, relational vocabularies of terms commonly used in Systems Biology, and in particular in computational…

  systems-biologycomputational-biologyontology+ 5

  systems-biologycomputational-biologyontologysbmlmathematical-modelingobofoundrynumerical-simulationbiosimulators

  Artistic License 2.0

  •2•11•5•0•Updated May 16, 2023May 16, 2023

• frog-specification

  Public
  FROG specification

  TeX

  •

  Apache License 2.0

  •2•0•0•0•Updated Apr 26, 2023Apr 26, 2023

• cbmpy-web-curator

  Public
  A web-based curation tool for genome scale, constraint-based models

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •1•0•0•0•Updated Apr 24, 2023Apr 24, 2023

• ddi-ebeye-ws-dao

  Public
  Java API to consume EBI Search Web Services

  webserviceebisearch-webservice-client

  webserviceebisearch-webservice-client

  Java

  •3•1•0•2•Updated Dec 10, 2022Dec 10, 2022

• common-entities

  Public
  External package for POJO, domain or entity classes used across interconnected and relevant projects.

  entitiespojosbiomodels

  entitiespojosbiomodels

  Java

  •0•0•0•0•Updated May 25, 2022May 25, 2022

• combinearchive.org

  Public
  The source code files of the unofficial website for COMBINE archives and its relevant resources as well as software and toools.

  combine

  combine

  CSS

  •3•0•0•0•Updated Nov 18, 2021Nov 18, 2021

• libCombine

  Public
  a C++ library for working with the COMBINE Archive format

  C++

  •

  BSD 2-Clause "Simplified" License

  •7•0•0•0•Updated Jul 20, 2021Jul 20, 2021

• automateannotations

  Public
  Automate the process of annotating models with a spreadsheet of terms

  csvpython3spreasheet

  csvpython3spreasheet

  Python

  •0•0•0•0•Updated Feb 23, 2021Feb 23, 2021

• test-jsbml-features

  Public
  Testing some features of JSBML library

  0•0•0•0•Updated Feb 18, 2021Feb 18, 2021

• uploader

  Public
  A lightweight and very configurable jQuery plugin for file uploading using ajax(a sync); includes support for queues, progress tracking and drag and drop.

  JavaScript

  •

  MIT License

  •377•0•0•0•Updated Feb 8, 2021Feb 8, 2021

• jummp-assets

  Public
  JavaScript

  •0•0•0•0•Updated Dec 7, 2020Dec 7, 2020