Repositories list

• biodivine-boolean-models

  Public
  A collection of 230+ Boolean networks from various sources useful for benchmarking or testing.

  TeX

  •3•12•65•0•Updated Jan 30, 2025Jan 30, 2025

• biodivine-sketchbook

  Public
  Biodivine Sketchbook is a multi-platform application for designing and analysing large-scale logical models.

  Rust

  •

  MIT License

  •1•0•18•0•Updated Jan 29, 2025Jan 29, 2025

• biodivine-control-tool

  Public
  JavaScript

  •

  MIT License

  •1•0•0•0•Updated Jan 20, 2025Jan 20, 2025

• arboreto

  Public
  Internal fork for archival purposes.

  Jupyter Notebook

  •

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

  •29•0•0•0•Updated Jan 9, 2025Jan 9, 2025

• biodivine-lib-bdd

  Public
  A small library for BDD manipulation in Rust. Part of the BioDivine toolset.

  Rust

  •

  MIT License

  •4•20•14•0•Updated Dec 23, 2024Dec 23, 2024

• biodivine-lib-sbml

  Public
  A Rust library for managing SBML files.

  Rust

  •

  MIT License

  •0•1•16•0•Updated Dec 7, 2024Dec 7, 2024

• biodivine-aeon-py

  Public
  Jupyter Notebook

  •

  MIT License

  •2•5•9•1•Updated Nov 29, 2024Nov 29, 2024

• biodivine-pbn-control

  Public
  Jupyter Notebook

  •

  MIT License

  •0•0•1•0•Updated Nov 29, 2024Nov 29, 2024

• eBCSgen

  Public
  eBCSgen - BioChemical Space Language support tool.

  simulationmodelingsystems-biology+ 2rule-based-modellingmechanistic-models

  JavaScript

  •

  MIT License

  •4•2•23•1•Updated Nov 25, 2024Nov 25, 2024

• biodivine-aeon-server

  Public
  Aeon boolean network analyser server service

  Rust

  •

  MIT License

  •0•0•6•0•Updated Nov 19, 2024Nov 19, 2024

• biodivine-hctl-model-checker

  Public
  Symbolic HCTL model checker for Boolean networks

  model-checkingboolean-networkrust

  Rust

  •

  MIT License

  •0•0•3•0•Updated Nov 7, 2024Nov 7, 2024

• biodivine-lib-param-bn

  Public
  Rust library for working with parametrised Boolean networks.

  Rust

  •

  MIT License

  •3•2•18•0•Updated Oct 31, 2024Oct 31, 2024

• runbench

  Public
  Rust

  •0•0•0•0•Updated Oct 30, 2024Oct 30, 2024

• biodivine-lib-bma-data

  Public
  Rust library for working with models in BMA format.

  Rust

  •

  MIT License

  •0•0•0•0•Updated Oct 3, 2024Oct 3, 2024

• biodivine-bn-classifier

  Public
  Desktop app for classification of partially specified Boolean networks based on HCTL properties.

  JavaScript

  •

  MIT License

  •0•0•3•0•Updated Jul 8, 2024Jul 8, 2024

• biodivine-boolean-functions

  Public
  A WIP Rust library with Python PyO3 bindings for Boolean function manipulation.

  Rust

  •

  MIT License

  •0•0•8•0•Updated May 23, 2024May 23, 2024

• casq-fork

  Public
  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated May 21, 2024May 21, 2024

• biodivine-xml-doc

  Public
  Rust xml tree parser to read, modify, and write xml

  Rust

  •

  Apache License 2.0

  •8•1•0•0•Updated May 15, 2024May 15, 2024

• boolean-network-sketches

  Public
  A small library for logical model inference using Boolean network sketches.

  Rust

  •

  MIT License

  •1•1•0•0•Updated Feb 26, 2024Feb 26, 2024

• biodivine-aeon-client

  Public
  JavaScript

  •1•2•19•0•Updated Feb 25, 2024Feb 25, 2024

• biodivine-lib-logical-models

  Public
  [Work in progress] A Rust library for working with logical models (Boolean/multi-valued networks) in systems biology.

  Rust

  •

  MIT License

  •0•0•13•0•Updated Feb 15, 2024Feb 15, 2024

• biodivine-aeon-desktop

  Public
  JavaScript

  •

  MIT License

  •0•0•3•0•Updated Feb 12, 2024Feb 12, 2024

• biodivine-rn-database

  Public
  1•0•0•0•Updated Jan 3, 2024Jan 3, 2024

• biodivine-boolean-models-website

  Public
  TypeScript

  •0•0•16•0•Updated Nov 30, 2023Nov 30, 2023

• cmp-frontend

  Public
  React client application for Comprehensive Modelling Platform.

  TypeScript

  •1•0•1•7•Updated May 7, 2023May 7, 2023

• galaxytools

  Public
  Set of Galaxy tool wrappers developed at Sybila

  TypeScript

  •

  MIT License

  •1•0•4•1•Updated Oct 31, 2022Oct 31, 2022

• pithya-core

  Public
  parameter-estimationctlmodel-checker

  Kotlin

  •

  GNU General Public License v3.0

  •0•1•8•0•Updated Aug 16, 2022Aug 16, 2022

• parasim

  Public
  Tool for paralell simulations and verification

  Java

  •

  GNU General Public License v3.0

  •1•3•23•0•Updated Aug 16, 2022Aug 16, 2022

• bn-ck-analysis

  Public archive
  Scripts for control kernels analysis extending the one of https://www.nature.com/articles/s41467-021-25533-3

  Python

  •0•0•0•0•Updated Dec 15, 2021Dec 15, 2021

• CMP-api

  Public
  PHP

  •

  MIT License

  •0•0•3•0•Updated Sep 16, 2021Sep 16, 2021