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    108 repositories

    • PaperSummaryDataset

      Public
      A workflow for generating summaries of research papers on biological models using generative AI.
      Python
      •
      MIT License
      •0•0•0•0•Updated Oct 11, 2024Oct 11, 2024

    • SimBioUI

      Public
      Web systems biology simulator
      JavaScript
      •
      MIT License
      •2•0•3•0•Updated Oct 10, 2024Oct 10, 2024

    • OcillatorDatabase

      Public
      Database of oscillatory chemical network models. Written in Antimony.
      Python
      •
      MIT License
      •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

    • SBMLNetwork

      Public
      SBMLNetwork is a library designed to enable software developers and systems biologists to interact with the graphical representation of SBML (Systems Biology Markup Language) models.
      C++
      •
      MIT License
      •2•0•0•0•Updated Oct 5, 2024Oct 5, 2024

    • roadrunner

      Public
      libRoadRunner: A high-performance SBML simulator
      sbmlsbml-simulation
      C++
      •
      Other
      •33•39•72•6•Updated Oct 4, 2024Oct 4, 2024

    • antimony

      Public
      C++
      •
      BSD 3-Clause "New" or "Revised" License
      •4•15•25•1•Updated Oct 1, 2024Oct 1, 2024

    • BiomodelsCache

      Public
      A biomodels cache for faster lookup.
      Python
      •
      Creative Commons Zero v1.0 Universal
      •1•0•0•0•Updated Oct 1, 2024Oct 1, 2024

    • libroadrunner-deps

      Public
      Dependencies for libroadrunner
      CMake
      •5•3•0•0•Updated Sep 30, 2024Sep 30, 2024

    • ratesb_python

      Public
      Analysis of rate laws in reaction networks.
      Python
      •
      MIT License
      •0•0•5•0•Updated Sep 22, 2024Sep 22, 2024

    • zlib

      Public
      A massively spiffy yet delicately unobtrusive compression library.
      C
      •2.4k•0•0•0•Updated Sep 17, 2024Sep 17, 2024

    • libxml2

      Public
      C
      •
      Other
      •0•1•0•0•Updated Sep 17, 2024Sep 17, 2024

    • libxslt

      Public
      Read-only mirror of https://gitlab.gnome.org/GNOME/libxslt
      HTML
      •
      Other
      •44•0•0•0•Updated Sep 17, 2024Sep 17, 2024

    • iconv

      Public
      C
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Sep 17, 2024Sep 17, 2024

    • BiomodelsStore

      Public
      JavaScript
      •2•0•0•0•Updated Aug 30, 2024Aug 30, 2024

    • temp-biomodels

      Public
      Temporary place for coordination of updating existing Biomodels
      Component Pascal
      •
      Creative Commons Zero v1.0 Universal
      •2•2•13•0•Updated Aug 27, 2024Aug 27, 2024

    • makesbml

      Public
      Simple site to convert antimony to sbml
      systems-biologysbml-models
      JavaScript
      •
      Apache License 2.0
      •1•1•1•1•Updated Aug 24, 2024Aug 24, 2024

    • InteractiveModels

      Public
      Models and simulator for Interactive modeling site: https://sites.google.com/view/interactive-modeling/home
      JavaScript
      •
      Apache License 2.0
      •0•1•0•0•Updated Aug 23, 2024Aug 23, 2024

    • llvm-13.x

      Public
      The LLVM Project is a collection of modular and reusable compiler and toolchain technologies. Note: the repository does not accept github pull requests at this moment. Please submit your patches at http://reviews.llvm.org.
      LLVM
      •12k•0•0•1•Updated Aug 15, 2024Aug 15, 2024

    • rr-libstruct

      Public
      C++
      •1•1•0•0•Updated Aug 15, 2024Aug 15, 2024

    • AntimonyEditor

      Public
      Antimony Web Editor: A Web Editor for the Antimony Modeling Language
      TypeScript
      •
      MIT License
      •1•0•14•1•Updated Jul 26, 2024Jul 26, 2024

    • libantimonyjs

      Public
      JavaScript version of the antimony library to support human-readable, human-writable modular model definition language.
      JavaScript
      •0•1•2•0•Updated Jul 21, 2024Jul 21, 2024

    • artificial_random_signaling_network

      Public
      Julia
      •
      MIT License
      •1•0•0•0•Updated Jul 20, 2024Jul 20, 2024

    • pyPESTO

      Public
      python Parameter EStimation TOolbox
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •47•0•0•0•Updated Jul 17, 2024Jul 17, 2024

    • EGFR

      Public
      Python
      •0•0•0•0•Updated Jul 9, 2024Jul 9, 2024

    • ReactionNetworkEvolution.jl

      Public
      A configurable reaction network evolver
      Julia
      •
      MIT License
      •1•0•0•1•Updated Jun 26, 2024Jun 26, 2024

    • Developing-a-workflow-for-creating-OMEX-files

      Public
      Component Pascal
      •
      MIT License
      •1•0•0•0•Updated Jun 24, 2024Jun 24, 2024

    • phrasedml

      Public
      Git mirror of https://sourceforge.net/projects/phrasedml/
      C++
      •
      BSD 3-Clause "New" or "Revised" License
      •1•2•0•0•Updated Jun 24, 2024Jun 24, 2024

    • frequencyResponse

      Public
      Computes frequency response for a SBML model
      Python
      •
      MIT License
      •0•1•0•0•Updated Jun 16, 2024Jun 16, 2024

    • EGFR_reference_models

      Public
      Jupyter Notebook
      •1•0•2•0•Updated Jun 3, 2024Jun 3, 2024

    • IridiumSimulator

      Public
      Interactive desktop simulator for systems biology
      Pascal
      •
      MIT License
      •2•3•0•0•Updated May 31, 2024May 31, 2024