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openCOBRA (opencobra)

openCOBRA

opencobra

Geek Repo

Community driven constraint-based reconstruction, analysis and modelling of biology

Location:Terra

Home Page:opencobra.github.io

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openCOBRA's repositories

cobrapy

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

Language:PythonLicense:GPL-2.0Stargazers:448Issues:39Issues:656

cobratoolbox

The COnstraint-Based Reconstruction and Analysis Toolbox. Documentation:

Language:MATLABLicense:NOASSERTIONStargazers:238Issues:34Issues:288

optlang

optlang - sympy based mathematical programming language

Language:PythonLicense:Apache-2.0Stargazers:229Issues:20Issues:119

memote

memote – the genome-scale metabolic model test suite

Language:HTMLLicense:Apache-2.0Stargazers:122Issues:20Issues:466

COBRA.jl

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

Language:JuliaLicense:NOASSERTIONStargazers:58Issues:16Issues:25

MATLAB.devTools

MATLAB Development Tools

Language:MATLABLicense:GPL-3.0Stargazers:27Issues:7Issues:4

swiglpk

Simple swig bindings for the GNU Linear Programming Kit

Language:PythonLicense:GPL-3.0Stargazers:26Issues:14Issues:31

Medusa

Analysis of ensembles of metabolic network reconstructions

Language:PythonLicense:MITStargazers:19Issues:4Issues:41

COBRA.tutorials

Repository of tutorials for The COBRA Toolbox

Language:MATLABStargazers:18Issues:6Issues:12

driven

Data-Driven Constraint-based analysis

Language:PythonLicense:Apache-2.0Stargazers:12Issues:18Issues:6

MASS-Toolbox

Mass Action Stoichiometric Simulation (MASS) Toolbox

Language:MathematicaLicense:NOASSERTIONStargazers:11Issues:13Issues:40

COBRA.papers

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

Language:MATLABStargazers:8Issues:8Issues:3

cobra-component-models

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

Language:PythonLicense:Apache-2.0Stargazers:3Issues:5Issues:0

ctf

Chemical table files for constraint-based modelling

License:GPL-3.0Stargazers:3Issues:6Issues:1

memote-docker

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

Language:ShellLicense:Apache-2.0Stargazers:3Issues:8Issues:1

cookiecutter-memote

A cookiecuttter template for memote model repositories

Language:PythonLicense:MITStargazers:2Issues:13Issues:8

cookiecutter-python-package

Extensive cookiecutter template for openCOBRA Python packages.

Language:PythonLicense:Apache-2.0Stargazers:2Issues:4Issues:0

schema

xml/rdf schemas for annotating cobra models

License:Apache-2.0Stargazers:2Issues:12Issues:12

COBRA.binary

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

Language:MATLABStargazers:1Issues:6Issues:1

cobrapy-bigg-client

Language:PythonLicense:Apache-2.0Stargazers:1Issues:15Issues:0

cobrapy-website

Language:HTMLLicense:LGPL-3.0Stargazers:1Issues:14Issues:6

kb_memote

Language:PythonLicense:MITStargazers:1Issues:10Issues:0

artenolis

Automated Reproducibility and Testing Environment for Licensed Software

Language:JavaStargazers:0Issues:5Issues:0

MASSef

Language:MathematicaStargazers:0Issues:5Issues:60

opencobra.github.io

Official openCOBRA website

Language:CSSLicense:MITStargazers:0Issues:9Issues:1

COBRA.java

Constraint-based reconstruction and analysis via Java

Stargazers:0Issues:4Issues:0

COBRA.models

Set of models used for testing COBRA code in continuous integration environments

Language:JuliaStargazers:0Issues:2Issues:0

jeweler

Test and grade genome-scale metabolic models (GEMs).

Language:NextflowLicense:Apache-2.0Stargazers:0Issues:5Issues:0

memote-webservice

Run memote in a microservice with a frontend that allows you to upload and test models.

Language:PythonLicense:Apache-2.0Stargazers:0Issues:7Issues:1

sphinx_cobra_theme

Language:HTMLLicense:MITStargazers:0Issues:2Issues:0