64 results for “topic:constraint-based-modeling”
The COnstraint-Based Reconstruction and Analysis Toolbox. Documentation:
The RAVEN Toolbox for genome scale model reconstruction, curation and analysis.
A Python framework for structural systems biology
A Python Library for modeling combinatorial constrained problems
Safe Pontryagin Differentiable Programming (Safe PDP) is a new theoretical and algorithmic safe differentiable framework to solve a broad class of safety-critical learning and control tasks.
High-level, high-performance, constraint-based reconstruction and analysis in Julia
An integrated visual environment for metabolic modeling methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as thermodynamic methods, extended Minimal Cut Sets, OptKnock, RobustKnock, OptCouple and more!
Constraint-Based Reconstruction and EXascale Analysis
EMBL GEMs: A collection of GEnome-scale Models for bacterial species
The Systems Biology Simulation Core Library (SBSCL) provides an efficient and exhaustive Java implementation of methods to interpret the content of models encoded in the Systems Biology Markup Language (SBML) and its numerical solution.
Repository of tutorials for The COBRA Toolbox
Visualization of metabolic models in Makie.
CBMPy is a Python based platform for constraint based modelling and analysis.
COnstraint Based Reconstruction and EXascale Analysis (in Julia)
pymCADRE enables the reconstruction of tissue-specific metabolic models in Python using transcriptomic data and information of the network topology.
Python, modeling and Flux balance analysis tutorials for the undergraduate Systems Biology course in Amsterdam
Models (and data) of constrained problems developped with the library PyCSP3
Genome-scale metabolic model of Methylococcus capsulatus.
Constraint-based modeling of metabolism using Mixed Integer Optimization
Genome-scale model of Yarrowia lipolytica.
Diversity-based enumeration of optimal context-specific metabolic networks
MOOMIN is a tool for analysing differential expression data
A lightweight interface to eQuilibrator and equilibrator_api through Julia.
Rule-Based Cebuano POS Tagger using Constraint-Based Grammar
Dynamically load-balanced FVA through a hybrid MPI/OpenMP architecture.
Modeling the metabolic changes during the epithelial-to-mesenchymal transition.
Code and data for in silico strain design for enhanced production of +100 typical bio-products with yeast as a cell-factory. Predictions are based on the ecYeastGEM model avaiable at ecModels.
From differential gene expression to metabolic changes
Determination of product-growth-coupled strain designs employing stoichiometric metabolic models.
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