Alternatives and similar repositories for community-simulator:

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

• meringlab / FlashWeave.jl
  Inference of microbial interaction networks from large-scale heterogeneous abundance data
  ☆80Updated 10 months ago
• SBRG / cobrame
  A COBRApy extension for genome-scale models of metabolism and expression (ME-models)
  ☆36Updated 6 years ago
• Chang-Yu-Chang / ecoprospector
  Python package simulating artificial selection on microbial communities
  ☆14Updated last year
• SBRG / precise-db
  A high-fidelity E. coli RNA-seq compendium
  ☆32Updated 4 years ago
• jdbrunner / surfin_fba
  Dynamic FBA for use with COBRApy metabolic models
  ☆10Updated last year
• ginkgobioworks / geckopy
  Enzyme-constrained genome-scale models in python
  ☆26Updated last year
• ThieleLab / CodeBase
  Code depository for papers
  ☆22Updated 4 months ago
• rcolpo / pgp_reconstruction
  Pathway-Guided Pruning Reconstruction of Genome-Scale Metabolic Models
  ☆12Updated last year
• cdanielmachado / framed
  framed: a metabolic modeling package for python
  ☆26Updated 5 years ago
• mmundy42 / mackinac
  Mackinac: A bridge between ModelSEED and COBRApy
  ☆19Updated 6 years ago
• Bahler-Lab / pyphe
  Python toolbox for phenotype analysis of arrayed microbial colonies
  ☆17Updated last year
• VirtualMetabolicHuman / AGORA
  The aim of this repository is to maintain, refine, and expand the AGORA collection of genome-scale metabolic reconstructions for human gu…
  ☆20Updated 4 years ago
• RamanLab / metquest
  Enumerating biosynthetic pathways in metabolic networks
  ☆12Updated 2 months ago
• AuReMe / metage2metabo
  From annotated genomes to metabolic screening in large scale microbiotas
  ☆56Updated last week
• zhouhj1994 / LinDA
  ☆35Updated last year
• biocore / qurro
  Visualize differentially ranked features (taxa, metabolites, ...) and their log-ratios across samples
  ☆33Updated 3 weeks ago
• cdanielmachado / reframed
  ReFramed: metabolic modeling package
  ☆58Updated 2 weeks ago
• euba / BacArena
  agent based modelling
  ☆27Updated 7 months ago
• kelwyres / Bactabolize
  ☆38Updated 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…
  ☆60Updated 2 months ago
• opencobra / m_model_collection
  A collection of M models downloaded from published studies
  ☆16Updated 9 years ago
• opencobra / COBRA.tutorials
  Repository of tutorials for The COBRA Toolbox
  ☆22Updated 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…
  ☆14Updated 8 months ago
• ecocyc / PythonCyc
  ☆24Updated 6 months ago
• biocore / DEICODE
  Robust Aitchison PCA from sparse count data
  ☆33Updated 2 years ago
• ModelSEED / ModelSEEDpy
  Python package for building and analyzing models using ModelSEED
  ☆22Updated last week
• ElisabethRoesch / Perspective_Julia_for_Biologists
  Online material for the Perspective: "Julia for Biologists" presented at JuliaCon 2021: https://www.youtube.com/watch?v=gRj7E5kYG1I
  ☆99Updated 2 years ago
• micom-dev / micom
  Python package to study microbial communities using metabolic modeling.
  ☆97Updated this week
• pstjohn / d3flux
  D3.js based visualizations of cobrapy metabolic models
  ☆45Updated 5 years ago
• danielriosgarza / MAMBO
  ☆11Updated 5 years ago