Chemical reaction network and systems biology interface for scientific machine learning (SciML). High performance, GPU-parallelized, and O(1) solvers in open source software.
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Updated
Jun 12, 2024 - Julia
Chemical reaction network and systems biology interface for scientific machine learning (SciML). High performance, GPU-parallelized, and O(1) solvers in open source software.
SyBValS: Systems Biology Validation Service
a modeling environment tailored to parameter estimation in dynamical systems
For finding, sharing and exchanging Data, Models, Simulations and Processes in Science.
A repository for the Playbook Workflow Builder project.
Galaxy wrappers of SynBioCAD tools suite
Fast stochastic simulator for chemical reaction networks
Antimony language support for IntelliJ Platform IDEs
MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell transcriptomics data
A collection of mathematical models with experimental data in the PEtab format as benchmark problems in order to evaluate new and existing methodologies for data-based modelling
Software tool for the compilation of Heta-based QSP modeling platform
INDRA (Integrated Network and Dynamical Reasoning Assembler) is an automated model assembly system interfacing with NLP systems and databases to collect knowledge, and through a process of assembly, produce causal graphs and dynamical models.
A Python package for analyses of Boolean and semi-quantitative Boolean networks.
Toolbox for including enzyme constraints on a genome-scale model.
Picotti lab data analysis package.
My personal website
A package for researchers working with biological oscillations
The biologist's Boolean attractor landscape mapper, building Waddington landscapes from Boolean networks.
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