StochSS / StochKit
StochKit is an extensible tool for stochastic simulation tool with stochastic and multiscale algorithms.
☆16Updated 4 years ago
Alternatives and similar repositories for StochKit:
Users that are interested in StochKit are comparing it to the libraries listed below
- Encoding Dynamic Flux Balance Analysis in SBML☆11Updated 4 years ago
- Rule-based modeling framework☆60Updated 3 months ago
- Jupyter widget for the dynamic and static visualizations of systems biology models written in PySB, BNGL, and SBML☆27Updated last year
- Standalone Python package containing libSBML with support for SBML Level 3 Core and accepted SBML Level 3 packages.☆21Updated 2 months ago
- libRoadRunner: A high-performance SBML simulator☆42Updated this week
- Dynamic Flux Balance analysis in Python☆11Updated 8 years ago
- Python Environment for Modeling and Simulating Biological Systems☆110Updated last month
- A general-purpose, stochastic, biochemical reaction simulator for large reaction networks☆17Updated 7 months ago
- MOCCASIN translates basic ODE-based MATLAB models of biological processes into SBML format.☆11Updated 4 months ago
- COPASI is a software application for simulation and analysis of biochemical networks and their dynamics.☆99Updated this week
- Multivariate Gaussian Direct Coupling Analysis for residue contact prediction in protein families - Julia module☆22Updated 2 years ago
- Symbolic Kinetic Models with Python☆30Updated 3 months ago
- Python utilities for SBML☆39Updated last month
- Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm☆25Updated 4 years ago
- Models that demonstrate the syntax and functionality of BioNetGen language and simulation tools.☆14Updated last year
- Open Source Protein REdesign for You v3☆48Updated last month
- A Universal Modeling Language for Metabolic Flux Analysis☆10Updated last month
- Modeling toolkit for biochemical simulation☆73Updated 3 months ago
- An application for parameterization of biological models available in SBML and BNGL formats. Features include parallelization, metaheuris…☆23Updated last year
- a C library for symbolic and numerical analysis of a system of ordinary differential equations (ODEs) derived from a chemical reaction ne…☆22Updated 6 years ago
- A COBRApy extension for genome-scale models of metabolism and expression (ME-models)☆36Updated 6 years ago
- Whole-cell modeling tutorials☆16Updated 4 years ago
- ☆35Updated 5 years ago
- Fast and accurate protein structure prediction☆49Updated last year
- ☆17Updated 2 weeks ago
- DeepMetabolism is a deep learning algorithm to predict phenotype from genome sequencing☆31Updated 7 years ago
- Automated omics-scale protein modeling and simulation setup.☆52Updated 3 years ago
- Container-based installation of pymol, with interaction through the browser via Jupyter notebook☆19Updated 5 years ago
- Learning Kinetic Models from Time Series Proteomics and Metabolomics Data☆28Updated 2 years ago
- Faster, more accurate and entirely open source method for predicting contacts in proteins☆12Updated 6 years ago