Alternatives and similar repositories for yeast-GEM

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

• SysBioChalmers / GECKO
  Toolbox for including enzyme constraints on a genome-scale model.
  ☆78Updated 2 weeks ago
• jclachance / BOFdat
  Generate biomass objective function stoichiometric coefficients for genome-scale models from experimental data
  ☆27Updated 2 years ago
• SysBioChalmers / Human-GEM
  The generic genome-scale metabolic model of Homo sapiens
  ☆122Updated 3 weeks ago
• opencobra / memote
  memote – the genome-scale metabolic model test suite
  ☆142Updated last month
• SBRG / bigg_models
  The BiGG Models website server
  ☆83Updated 5 years ago
• SysBioChalmers / RAVEN
  The RAVEN Toolbox for genome scale model reconstruction, curation and analysis.
  ☆113Updated 3 weeks ago
• klamt-lab / straindesign
  StrainDesign is a python package for the computational design of metabolic networks and based on COBRApy
  ☆46Updated last month
• pstjohn / d3flux
  D3.js based visualizations of cobrapy metabolic models
  ☆47Updated 5 years ago
• moshi4 / pyMSAviz
  MSA(Multiple Sequence Alignment) visualization python package for sequence analysis
  ☆154Updated 10 months ago
• biosustain / cameo
  cameo - computer aided metabolic engineering & optimization
  ☆120Updated 2 years ago
• SBRG / ssbio
  A Python framework for structural systems biology
  ☆109Updated 4 years ago
• gecrooks / weblogo
  WebLogo 3: Sequence Logos redrawn
  ☆152Updated 5 months ago
• SysBioChalmers / ecModels
  A container for all enzyme constrained models created by GECKO.
  ☆14Updated 3 years ago
• pydna-group / pydna
  Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning…
  ☆206Updated last week
• hiyama341 / teemi
  teemi: A Python package for reproducible and FAIR microbial strain construction. Simulate the entire dbtl-cycle, generate genetic parts, …
  ☆41Updated 7 months ago
• jbkinney / logomaker
  Software for the visualization of sequence-function relationships
  ☆203Updated 4 months ago
• ginkgobioworks / geckopy
  Enzyme-constrained genome-scale models in python
  ☆28Updated last year
• MiguelMSandin / SSNetworks
  A brief, quick and dirty introduction to Sequence Similarity Networks
  ☆25Updated 2 years ago
• Merck / deepbgc
  BGC Detection and Classification Using Deep Learning
  ☆154Updated last year
• fteufel / signalp-6.0
  Multi-class signal peptide prediction and structure decoding model.
  ☆95Updated 8 months ago
• refresh-bio / FAMSA
  Algorithm for ultra-scale multiple sequence alignments (3M protein sequences in 5 minutes and 24 GB of RAM)
  ☆201Updated 2 months ago
• klamt-lab / autopacmen
  Retrieves kcat data and adds protein allocation constraints to stoichiometric metabolic models according to the sMOMENT method
  ☆15Updated 7 months ago
• DessimozLab / fold_tree
  snakemake pipeline for creating trees from sequence sets
  ☆86Updated 2 weeks ago
• steineggerlab / foldmason
  Multiple Protein Structure Alignment at Scale with FoldMason
  ☆190Updated this week
• nf-core / proteinfold
  Protein 3D structure prediction pipeline
  ☆86Updated last week
• opencobra / cobratoolbox
  The COnstraint-Based Reconstruction and Analysis Toolbox. Documentation:
  ☆266Updated last week
• Edinburgh-Genome-Foundry / DnaCauldron
  Simple cloning simulator (Golden Gate etc.) for single and combinatorial assemblies
  ☆62Updated 4 months ago
• CovertLab / WholeCellEcoliRelease
  Release of the whole cell E. coli model.
  ☆71Updated 9 months ago
• cdanielmachado / reframed
  ReFramed: metabolic modeling package
  ☆61Updated 3 weeks ago
• rcedgar / muscle
  Multiple sequence and structure alignment with top benchmark scores scalable to thousands of sequences. Generates replicate alignments, e…
  ☆251Updated 3 weeks ago