opencobra/COBRA.tutorials

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Created almost 7 years ago
Updated about 1 year ago

opencobra/COBRA.tutorials

opencobra

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Repository of tutorials for The COBRA Toolbox

cobrapy

COBRApy is a package for constraint-based modeling of metabolic networks.

cobratoolbox

The COnstraint-Based Reconstruction and Analysis Toolbox. Documentation:

optlang

optlang - sympy based mathematical programming language

memote

memote – the genome-scale metabolic model test suite

COBRA.jl

High-level, high-performance, constraint-based reconstruction and analysis in Julia

MATLAB.devTools

MATLAB Development Tools

Medusa

Analysis of ensembles of metabolic network reconstructions

m_model_collection

A collection of M models downloaded from published studies

Jupyter Notebook

driven

Data-Driven Constraint-based analysis

MASS-Toolbox

Mass Action Stoichiometric Simulation (MASS) Toolbox

COBRA.papers

Repository for scripts related to reproducing the results of an individual publication

cobra-component-models

Provide SQLAlchemy ORM and pydantic data models for SQL storage and serialization of COBRA components such as reactions, compounds, and compartments.

memote-docker

Easily use the memote command line interface from a docker container.

cookiecutter-memote

A cookiecuttter template for memote model repositories

cookiecutter-python-package

Extensive cookiecutter template for openCOBRA Python packages.

schema

xml/rdf schemas for annotating cobra models

cobrapy_shim

Shim for the COBRA toolbox to call cobrapy functions

cobrapy-bigg-client

cobrapy-website

ctf

Chemical table files for constraint-based modelling

COBRA.binary

Linux, Windows and Mac binaries maintained by the constraint-based reconstruction and analysis community