Alternatives and similar repositories for standard-GEM

Users that are interested in standard-GEM are comparing it to the libraries listed below

• ModelSEED / ModelSEEDDatabase
  This repository contains the definitive copy of the biochemistry and metadata used to construct models using the ModelSEED/ProbAnno appro…
  ☆62Updated 6 months ago
• opencobra / memote
  memote – the genome-scale metabolic model test suite
  ☆135Updated last year
• SysBioChalmers / RAVEN
  The RAVEN Toolbox for genome scale model reconstruction, curation and analysis.
  ☆113Updated 2 months ago
• cnapy-org / CNApy
  An integrated visual environment for metabolic modeling with common methods such as FBA, FVA and Elementary Flux Modes, and advanced feat…
  ☆57Updated 2 weeks ago
• SBRG / bigg_models
  The BiGG Models website server
  ☆83Updated 5 years ago
• jdbrunner / surfin_fba
  Dynamic FBA for use with COBRApy metabolic models
  ☆10Updated last year
• cdanielmachado / reframed
  ReFramed: metabolic modeling package
  ☆59Updated 3 months ago
• ginkgobioworks / geckopy
  Enzyme-constrained genome-scale models in python
  ☆28Updated last year
• opencobra / m_model_collection
  A collection of M models downloaded from published studies
  ☆16Updated 9 years ago
• cdanielmachado / embl_gems
  EMBL GEMs: A collection of GEnome-scale Models for bacterial species
  ☆28Updated 6 years ago
• micom-dev / micom
  Python package to study microbial communities using metabolic modeling.
  ☆104Updated 2 months ago
• ThieleLab / CodeBase
  Code depository for papers
  ☆25Updated 7 months ago
• ModelSEED / ModelSEEDpy
  Python package for building and analyzing models using ModelSEED
  ☆23Updated 3 months ago
• SystemsBioinformatics / cbmpy
  CBMPy is a Python based platform for constraint based modelling and analysis.
  ☆19Updated last year
• draeger-lab / ModelPolisher
  ModelPolisher accesses the BiGG Models knowledgebase to annotate SBML models.
  ☆23Updated 6 months ago
• cdanielmachado / smetana
  SMETANA: a tool to analyse interactions in microbial communities
  ☆61Updated 3 months ago
• cdanielmachado / carveme
  CarveMe: genome-scale metabolic model reconstruction
  ☆175Updated 3 months ago
• VirtualMetabolicHuman / AGORA
  The aim of this repository is to maintain, refine, and expand the AGORA collection of genome-scale metabolic reconstructions for human gu…
  ☆22Updated 4 years ago
• arvestad / alv
  A console-based alignment viewer
  ☆114Updated last month
• meringlab / FlashWeave.jl
  Inference of microbial interaction networks from large-scale heterogeneous abundance data
  ☆86Updated last year
• opencobra / COBRA.tutorials
  Repository of tutorials for The COBRA Toolbox
  ☆22Updated this week
• jclachance / BOFdat
  Generate biomass objective function stoichiometric coefficients for genome-scale models from experimental data
  ☆27Updated 2 years ago
• SysBioChalmers / GECKO
  Toolbox for including enzyme constraints on a genome-scale model.
  ☆76Updated 3 months ago
• AuReMe / metage2metabo
  From annotated genomes to metabolic screening in large scale microbiotas
  ☆62Updated 2 months ago
• mmundy42 / mackinac
  Mackinac: A bridge between ModelSEED and COBRApy
  ☆19Updated 6 years ago
• rcolpo / pgp_reconstruction
  Pathway-Guided Pruning Reconstruction of Genome-Scale Metabolic Models
  ☆12Updated last year
• danielriosgarza / MAMBO
  ☆11Updated 6 years ago
• tamascogustavo / chimera
  Chimera: An easy to use pipeline for Genome based Metabolic Network reconstruction, evaluation and visualization.
  ☆18Updated 2 years ago
• lobolab / mergem
  mergem is a python package and command-line tool for merging, comparing, and translating genome-scale metabolic models
  ☆13Updated last week
• kelwyres / Bactabolize
  ☆39Updated last month