Models that demonstrate the syntax and functionality of BioNetGen language and simulation tools.
☆15May 30, 2023Updated 2 years ago
Alternatives and similar repositories for BNGTutorial
Users that are interested in BNGTutorial are comparing it to the libraries listed below
Sorting:
- A platform for sharing and reusing biomodeling studies including models, simulations, and visualizations of their results☆42Updated this week
- Ontology of algorithms for analyzing biological models, their parameters, and their outputs☆11Dec 2, 2024Updated last year
- Rule-based modeling framework☆67Updated this week
- Netflux is a user-friendly software for developing dynamic computational models of biological networks. Models are created in Excel forma…☆31Jan 9, 2025Updated last year
- Patient-Specific Modeling in Python☆19Updated this week
- Jupyter widget for the dynamic and static visualizations of systems biology models written in PySB, BNGL, and SBML☆27Mar 13, 2023Updated 3 years ago
- Julia Catalyst.jl importers for various reaction network file formats like BioNetGen and stoichiometry matrices☆27Mar 9, 2026Updated last week
- PEtab - an SBML and TSV based data format for parameter estimation problems in systems biology☆63Feb 25, 2026Updated 3 weeks ago
- cy3sbml: SBML for Cytoscape 3☆15Jan 22, 2026Updated last month
- A tool for semantics-based annotation and composition of biosimulation models☆20Jan 6, 2023Updated 3 years ago
- Particle Swarm Optimization algorithm in Python☆13Apr 23, 2024Updated last year
- Build hydrogen atoms from united-atom molecular dynamics of lipids and calculate the order parameters.☆16Dec 20, 2022Updated 3 years ago
- Structure-aware PRotein ligand INTeraction (SPRINT) is a ultrafast deep learning framework for drug-target interaction prediction.☆15Feb 19, 2026Updated last month
- Python utilities for SBML☆41Jan 22, 2026Updated last month
- The Systems Biology Ontology (SBO) is a set of controlled, relational vocabularies of terms commonly used in Systems Biology, and in part…☆11May 16, 2023Updated 2 years ago
- An interactive data table for Pluto.jl notebooks.☆10Nov 22, 2020Updated 5 years ago
- Adding conjecturing to Sage☆14Mar 17, 2023Updated 3 years ago
- PePPer - Personalized Perturbation Profiler☆11Oct 4, 2018Updated 7 years ago
- ☆11Dec 11, 2025Updated 3 months ago
- ☆13Dec 20, 2025Updated 3 months ago
- Objects, Invariants and Properties for Graph Theory (GT) automated conjecturing: in particular with the Sage program CONJECTURING: http:/…☆17May 24, 2023Updated 2 years ago
- Geometry-preserving Adaptive Mesher☆35Sep 3, 2024Updated last year
- Multivariate (generalized) scattered data interpolation with symmetric (conditionally) positive definite kernel functions in arbitrary di…☆17Mar 4, 2026Updated 2 weeks ago
- This page hosts NeKo, a python package that allow the user to automatically build gene regulatory networks from any databases.☆17Feb 23, 2026Updated 3 weeks ago
- Fast vectorized mathematical functions for SIMD.jl , using SLEEFPirates.jl .☆12May 28, 2025Updated 9 months ago
- Dose response curves and DIP rates for cell proliferation data in Python☆14Mar 13, 2026Updated last week
- exactly rounded double-precision summation for Julia☆20Dec 15, 2025Updated 3 months ago
- Must-read papers on AI for Biology☆24Oct 4, 2023Updated 2 years ago
- Polynomial bases for spectral element methods.☆14Mar 2, 2026Updated 2 weeks ago
- The extension for Sphinx documentation projects that handles redirects for moved pages. Based on the its configuration, the extension gen…☆16Feb 27, 2026Updated 2 weeks ago
- MOCCASIN translates basic ODE-based MATLAB models of biological processes into SBML format.☆12Aug 21, 2024Updated last year
- Python package for building SBML models without needing to use libSBML.☆11Aug 18, 2021Updated 4 years ago
- repository with the scripts to run examples of the publications with new functionalities of TCGAbiolinks☆17Mar 2, 2022Updated 4 years ago
- Attention Unet and Deep Unet implementation for road extraction multi-gpu tensorflow☆18Feb 22, 2021Updated 5 years ago
- ☆14Dec 3, 2024Updated last year
- Exact and heuristic methods for tearing☆13Sep 2, 2023Updated 2 years ago
- A faster and more accurate Exp (and Exp2, Exp10) functions for Julia.☆16Jan 18, 2022Updated 4 years ago
- Sample code from Allen & Tildesley's Computer Simulation of Liquids, 1st Ed. See https://github.com/Allen-Tildesley/examples for moderni…☆18Sep 10, 2017Updated 8 years ago
- ☆17Oct 29, 2021Updated 4 years ago