Alternatives and similar repositories for cbmpy

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

• opencobra / memote
  memote – the genome-scale metabolic model test suite
  ☆144Updated 5 months ago
• ModelSEED / ModelSEEDDatabase
  This repository contains the definitive copy of the biochemistry and metadata used to construct models using the ModelSEED/ProbAnno appro…
  ☆65Updated last month
• micom-dev / micom
  Python package to study microbial communities using metabolic modeling.
  ☆115Updated last week
• cdanielmachado / reframed
  ReFramed: metabolic modeling package
  ☆63Updated 4 months ago
• ModelSEED / ModelSEEDpy
  Python package for building and analyzing models using ModelSEED
  ☆25Updated 9 months ago
• medema-group / bigslice
  A highly scalable, user-interactive tool for the large scale analysis of Biosynthetic Gene Clusters data
  ☆95Updated 5 months ago
• cdanielmachado / smetana
  SMETANA: a tool to analyse interactions in microbial communities
  ☆66Updated 9 months ago
• cdanielmachado / carveme
  CarveMe: genome-scale metabolic model reconstruction
  ☆194Updated 4 months ago
• emmamglass / reconstructor
  This repository contains all source code in the reconstructor python package, installation instructions, important file dependencies, and…
  ☆24Updated this week
• soedinglab / plass
  sensitive and precise assembly of short sequencing reads
  ☆162Updated last year
• ginkgobioworks / geckopy
  Enzyme-constrained genome-scale models in python
  ☆34Updated 2 years ago
• SysBioChalmers / RAVEN
  The RAVEN Toolbox for genome scale model reconstruction, curation and analysis.
  ☆121Updated 3 weeks ago
• medema-group / BiG-SCAPE
  Similarity networks of biosynthetic gene clusters
  ☆150Updated last week
• KatyBrown / CIAlign
  ☆133Updated last year
• EddyRivasLab / infernal
  RNA secondary structure/sequence profiles for homology search and alignment
  ☆123Updated last month
• klamt-lab / straindesign
  StrainDesign is a python package for the computational design of metabolic networks and based on COBRApy
  ☆48Updated last month
• morgannprice / PaperBLAST
  PaperBLAST: find papers about a protein or its homologs
  ☆51Updated 2 weeks ago
• gbouras13 / phold
  Phage Annotation using Protein Structures
  ☆148Updated last week
• AlmaasLab / BiGMeC
  BiGMeC - Biosynthetic Gene cluster Metabolic pathway Constructor
  ☆16Updated 2 years ago
• mmcguffi / pLannotate
  Webserver and command line tool for annotating engineered plasmids
  ☆136Updated 6 months ago
• steineggerlab / Metabuli
  Metabuli: specific and sensitive metagenomic classification via joint analysis of DNA and amino acid.
  ☆162Updated last month
• tamascogustavo / chimera
  Chimera: An easy to use pipeline for Genome based Metabolic Network reconstruction, evaluation and visualization.
  ☆18Updated 3 years ago
• jclachance / BOFdat
  Generate biomass objective function stoichiometric coefficients for genome-scale models from experimental data
  ☆27Updated 2 years ago
• cdanielmachado / embl_gems
  EMBL GEMs: A collection of GEnome-scale Models for bacterial species
  ☆30Updated 6 years ago
• SysBioChalmers / GECKO
  Toolbox for including enzyme constraints on a genome-scale model.
  ☆79Updated last week
• gamcil / cblaster
  Find clustered hits from a BLAST search
  ☆132Updated 3 weeks ago
• mckennalab / Circuitseq
  Nanopore Plasmid Sequencing
  ☆34Updated 2 years ago
• althonos / pyrodigal
  Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!
  ☆176Updated last month
• IndexThePlanet / Logan
  Logan Unitigs and Contigs
  ☆184Updated 4 months ago
• biobakery / graphlan
  High-quality circular representations of taxonomic and phylogenetic trees
  ☆106Updated last year