Alternatives and similar repositories for cbmpy:

Users that are interested in cbmpy are comparing it to the libraries listed below

• cdanielmachado / reframed
  ReFramed: metabolic modeling package
  ☆58Updated this week
• ModelSEED / ModelSEEDpy
  Python package for building and analyzing models using ModelSEED
  ☆22Updated last week
• micom-dev / micom
  Python package to study microbial communities using metabolic modeling.
  ☆97Updated 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
• klamt-lab / straindesign
  StrainDesign is a python package for the computational design of metabolic networks and based on COBRApy
  ☆42Updated last month
• emmamglass / reconstructor
  This repository contains all source code in the reconstructor python package, installation instructions, important file dependencies, and…
  ☆19Updated last week
• medema-group / bigslice
  A highly scalable, user-interactive tool for the large scale analysis of Biosynthetic Gene Clusters data
  ☆79Updated 4 months ago
• AlmaasLab / BiGMeC
  BiGMeC - Biosynthetic Gene cluster Metabolic pathway Constructor
  ☆14Updated last year
• jclachance / BOFdat
  Generate biomass objective function stoichiometric coefficients for genome-scale models from experimental data
  ☆27Updated last year
• opencobra / memote
  memote – the genome-scale metabolic model test suite
  ☆131Updated last year
• SBRG / cobrame
  A COBRApy extension for genome-scale models of metabolism and expression (ME-models)
  ☆36Updated 6 years ago
• cdanielmachado / smetana
  SMETANA: a tool to analyse interactions in microbial communities
  ☆57Updated 4 years ago
• iquasere / KEGGCharter
  A tool for representing genomic potential and transcriptomic expression into KEGG pathways
  ☆54Updated 8 months ago
• kelwyres / Bactabolize
  ☆38Updated this week
• SysBioInra / RBApy
  Python package for creating, calibrating and simulating RBA models
  ☆12Updated last year
• cdanielmachado / embl_gems
  EMBL GEMs: A collection of GEnome-scale Models for bacterial species
  ☆26Updated 6 years ago
• tamascogustavo / chimera
  Chimera: An easy to use pipeline for Genome based Metabolic Network reconstruction, evaluation and visualization.
  ☆17Updated 2 years ago
• mckennalab / Circuitseq
  Nanopore Plasmid Sequencing
  ☆32Updated last year
• medema-group / BiG-SCAPE
  Similarity networks of biosynthetic gene clusters
  ☆104Updated this week
• ginkgobioworks / geckopy
  Enzyme-constrained genome-scale models in python
  ☆26Updated last year
• morgannprice / PaperBLAST
  PaperBLAST: find papers about a protein or its homologs
  ☆39Updated 2 months ago
• cdanielmachado / carveme
  CarveMe: genome-scale metabolic model reconstruction
  ☆165Updated 7 months ago
• SysBioChalmers / GECKO
  Toolbox for including enzyme constraints on a genome-scale model.
  ☆70Updated this week
• opencobra / m_model_collection
  A collection of M models downloaded from published studies
  ☆16Updated 9 years ago
• EnzoAndree / HmmPy
  A Pure-Python parser of HMMER3 output
  ☆17Updated 6 months ago
• cultivarium / GenomeSPOT
  Predict oxygen, temperature, salinity, and pH preferences of bacteria and archaea from a genome
  ☆48Updated 2 weeks ago
• opencobra / COBRA.tutorials
  Repository of tutorials for The COBRA Toolbox
  ☆21Updated this week
• RyanCook94 / inphared
  Providing up-to-date phage genome databases, metrics and useful input files for a number of bioinformatic pipelines.
  ☆67Updated 3 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…
  ☆54Updated last month
• HobnobMancer / cazy_webscraper
  Web scraper to retrieve protein data catalogued by the CAZy, UniProt, NCBI, GTDB and PDB websites/databases.
  ☆14Updated 3 months ago