Repositories list

• bonesistools

  Public
  BoNeSisTools is a Python library providing tools for the visualisation and preprocessing of multi-omics data and the analysis of Boolean Networks

  Python

  •0•0•0•0•Updated May 31, 2025May 31, 2025

• scBoolSeq

  Public
  scBoolSeq: scRNA-Seq data binarisation and synthetic generation from Boolean dynamics

  machine-learningbioinformaticsscikit-learn+ 6computational-biologypandaspython3scrna-seqsingle-cell-rna-seqboolean-networks

  Python

  •1•10•1•0•Updated Jan 30, 2025Jan 30, 2025

• mpbn

  Public
  Brief Python implementation of Most Permissive Boolean Networks

  Python

  •2•19•0•0•Updated Jan 29, 2025Jan 29, 2025

• bonesis

  Public
  Synthesis and Reprogramming of Most Permissive Boolean Networks

  systems-biologysynthesisanswer-set-programming+ 1boolean-networks

  Python

  •

  Other

  •2•13•1•0•Updated Jan 29, 2025Jan 29, 2025

• scBoolSeq-supplementary

  Public
  Notebooks demonstrating scBoolSeq for scRNA-Seq binarization and synthetic generation

  Jupyter Notebook

  •0•0•0•0•Updated Jun 28, 2024Jun 28, 2024

• bnediction.github.io

  Public
  BNediction webpage

  HTML

  •0•0•0•0•Updated Jun 14, 2024Jun 14, 2024

• cegar-bonesis

  Public
  CEGAR for universal properties over minimal trap spaces of Boolean networks

  Python

  •0•2•0•0•Updated Jul 11, 2023Jul 11, 2023

• reprogramming-with-bonesis

  Public
  Executable paper and data demonstrating marker reprogramming of Boolean networks with BoNesis

  controlanswer-set-programmingattractors+ 4reprogrammingboolean-networksminimal-trap-spacesmost-permissive

  TeX

  •0•0•0•0•Updated Mar 24, 2023Mar 24, 2023

• mpbn-sim

  Public archive
  Simulation of Most Permissive Boolean networks

  Python

  •0•1•0•0•Updated Dec 1, 2022Dec 1, 2022

• profile_binr

  Public archive
  PROFILE RNA-seq binarization technique.

  bioinformaticscomputational-biologypandas+ 6python3rna-seq-analysisbinarizationsingle-cell-rna-seqrpy2normalisation

  Python

  •

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

  •1•4•0•1•Updated May 23, 2022May 23, 2022

• BooleanNetworks.jl

  Public
  Boolean networks in Julia

  Julia

  •

  MIT License

  •0•7•0•0•Updated Feb 23, 2022Feb 23, 2022