Alternatives and similar repositories for community-simulator

Users that are interested in community-simulator are comparing it to the libraries listed below

• SBRG / cobrame
  A COBRApy extension for genome-scale models of metabolism and expression (ME-models)
  ☆35Updated 6 years ago
• SBRG / precise-db
  A high-fidelity E. coli RNA-seq compendium
  ☆33Updated 4 years ago
• segrelab / comets
  Computation of Microbial Ecosystems in Time and Space
  ☆26Updated 3 weeks ago
• broadinstitute / pyro-cov
  Pyro models of SARS-CoV-2 variants
  ☆77Updated last year
• cdanielmachado / reframed
  ReFramed: metabolic modeling package
  ☆62Updated 2 months ago
• ginkgobioworks / geckopy
  Enzyme-constrained genome-scale models in python
  ☆29Updated 2 years ago
• ThieleLab / CodeBase
  Code depository for papers
  ☆26Updated 3 weeks ago
• pstjohn / d3flux
  D3.js based visualizations of cobrapy metabolic models
  ☆48Updated 5 years ago
• mmundy42 / mackinac
  Mackinac: A bridge between ModelSEED and COBRApy
  ☆19Updated 7 years 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…
  ☆58Updated 2 weeks ago
• ModelSEED / ModelSEEDDatabase
  This repository contains the definitive copy of the biochemistry and metadata used to construct models using the ModelSEED/ProbAnno appro…
  ☆64Updated last week
• danielriosgarza / MAMBO
  ☆10Updated 6 years ago
• jbloomlab / SARS2-RBD-escape-calc
  SARS-CoV-2 RBD antibody escape calculator
  ☆12Updated last year
• euba / BacArena
  agent based modelling
  ☆34Updated last year
• Bahler-Lab / pyphe
  Python toolbox for phenotype analysis of arrayed microbial colonies
  ☆17Updated last year
• SysBioInra / RBApy
  Python package for creating, calibrating and simulating RBA models
  ☆13Updated 2 years ago
• opencobra / m_model_collection
  A collection of M models downloaded from published studies
  ☆17Updated 9 years ago
• SysBioChalmers / GECKO
  Toolbox for including enzyme constraints on a genome-scale model.
  ☆78Updated 3 weeks ago
• biosustain / Maud
  Enzyme models that take into account kinetics, allostery and thermodynamics
  ☆27Updated last year
• opencobra / COBRA.tutorials
  Repository of tutorials for The COBRA Toolbox
  ☆23Updated last week
• meringlab / FlashWeave.jl
  Inference of microbial interaction networks from large-scale heterogeneous abundance data
  ☆89Updated last month
• SBRG / bigg_models
  The BiGG Models website server
  ☆85Updated 6 years ago
• cdanielmachado / framed
  framed: a metabolic modeling package for python
  ☆26Updated 6 years ago
• jrjhealey / bioinfo-tools
  Just a collection of (often poor) scripts to do various bits of bioinformatics stuff I find myself needing to do.
  ☆61Updated 5 years ago
• EPFL-LCSB / etfl
  ETFL: A formulation for flux balance models accounting for expression, thermodynamics, and resource allocation constraints
  ☆16Updated 4 months ago
• jdbrunner / surfin_fba
  Dynamic FBA for use with COBRApy metabolic models
  ☆10Updated 2 years ago
• CovertLab / wcEcoli
  Whole Cell Model of E. coli
  ☆33Updated this week
• klamt-lab / straindesign
  StrainDesign is a python package for the computational design of metabolic networks and based on COBRApy
  ☆46Updated 2 weeks ago
• Toepfer-Lab / cobramod
  CobraMod is a Python 3 open-source package which enables modifying and extending genome-scale metabolic models with metabolic pathway inf…
  ☆15Updated 3 months ago
• RamanLab / metquest
  Enumerating biosynthetic pathways in metabolic networks
  ☆12Updated 9 months ago