Alternatives and similar repositories for reframed

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

• SysBioChalmers / RAVEN
  The RAVEN Toolbox for genome scale model reconstruction, curation and analysis.
  ☆121Updated 3 weeks ago
• micom-dev / micom
  Python package to study microbial communities using metabolic modeling.
  ☆115Updated 2 weeks ago
• 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
• cdanielmachado / carveme
  CarveMe: genome-scale metabolic model reconstruction
  ☆194Updated 4 months ago
• SystemsBioinformatics / cbmpy
  CBMPy is a Python based platform for constraint based modelling and analysis.
  ☆19Updated last year
• ModelSEED / ModelSEEDpy
  Python package for building and analyzing models using ModelSEED
  ☆25Updated 9 months ago
• jdbrunner / surfin_fba
  Dynamic FBA for use with COBRApy metabolic models
  ☆10Updated 2 years ago
• ginkgobioworks / geckopy
  Enzyme-constrained genome-scale models in python
  ☆34Updated 2 years ago
• mmundy42 / mackinac
  Mackinac: A bridge between ModelSEED and COBRApy
  ☆19Updated 7 years ago
• soedinglab / plass
  sensitive and precise assembly of short sequencing reads
  ☆162Updated last year
• medema-group / bigslice
  A highly scalable, user-interactive tool for the large scale analysis of Biosynthetic Gene Clusters data
  ☆95Updated 5 months ago
• cdanielmachado / embl_gems
  EMBL GEMs: A collection of GEnome-scale Models for bacterial species
  ☆30Updated 6 years ago
• klamt-lab / straindesign
  StrainDesign is a python package for the computational design of metabolic networks and based on COBRApy
  ☆48Updated last month
• franciscozorrilla / metaGEM
  An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within micro…
  ☆253Updated last year
• jotech / gapseq
  Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks
  ☆204Updated last week
• jclachance / BOFdat
  Generate biomass objective function stoichiometric coefficients for genome-scale models from experimental data
  ☆27Updated 2 years ago
• urmi-21 / orfipy
  Fast and flexible ORF finder
  ☆78Updated 4 years ago
• SysBioChalmers / GECKO
  Toolbox for including enzyme constraints on a genome-scale model.
  ☆79Updated last week
• tamascogustavo / chimera
  Chimera: An easy to use pipeline for Genome based Metabolic Network reconstruction, evaluation and visualization.
  ☆18Updated 3 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.
  ☆63Updated 5 years ago
• EddyRivasLab / infernal
  RNA secondary structure/sequence profiles for homology search and alignment
  ☆123Updated last month
• Merck / deepbgc
  BGC Detection and Classification Using Deep Learning
  ☆157Updated 2 years ago
• EBI-Metagenomics / genomes-catalogue-pipeline
  MGnify genome analysis pipeline
  ☆108Updated 3 weeks ago
• biocore / mmvec
  Neural networks for microbe-metabolite interaction analysis
  ☆126Updated 3 years ago
• biobakery / graphlan
  High-quality circular representations of taxonomic and phylogenetic trees
  ☆106Updated last year
• medema-group / BiG-SCAPE
  Similarity networks of biosynthetic gene clusters
  ☆150Updated last week
• arvestad / alv
  A console-based alignment viewer
  ☆118Updated 7 months ago
• cdanielmachado / smetana
  SMETANA: a tool to analyse interactions in microbial communities
  ☆66Updated 9 months ago
• mckennalab / Circuitseq
  Nanopore Plasmid Sequencing
  ☆34Updated 2 years ago