D3.js based visualizations of cobrapy metabolic models
☆55Mar 10, 2020Updated 6 years ago
Alternatives and similar repositories for d3flux
Users that are interested in d3flux are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- An integrated visual environment for metabolic modeling methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as…☆70Sep 22, 2026Updated 2 weeks ago
- memote – the genome-scale metabolic model test suite☆152Aug 14, 2025Updated last year
- StrainDesign is a python package for the computational design of metabolic networks and based on COBRApy☆53Updated this week
- Python, modeling and Flux balance analysis tutorials for the undergraduate Systems Biology course in Amsterdam☆14Jun 30, 2019Updated 7 years ago
- Constraint-based Metabolic Modeling Course☆12Jul 25, 2022Updated 4 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- cameo - computer aided metabolic engineering & optimization☆129Nov 7, 2022Updated 3 years ago
- Mackinac: A bridge between ModelSEED and COBRApy☆19Aug 20, 2018Updated 8 years ago
- Teaching materials for cobrapy, cameo, escher and DD-DeCaF☆28Jul 12, 2022Updated 4 years ago
- ReFramed: metabolic modeling package☆63Jun 26, 2026Updated 3 months ago
- Reconstruction algorithms for Python☆28Oct 23, 2024Updated last year
- This repository contains all source code in the reconstructor python package, installation instructions, important file dependencies, and…☆26Feb 6, 2026Updated 8 months ago
- ☆11Oct 21, 2023Updated 2 years ago
- ☆20Aug 29, 2025Updated last year
- Analysis of ensembles of metabolic network reconstructions☆22Sep 3, 2026Updated last month
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- The RAVEN Toolbox for genome scale model reconstruction, curation and analysis.☆131Updated this week
- A constraint-based method for prediction of metabolic engineering targets using ecModels of metabolism☆15Feb 12, 2025Updated last year
- ☆11Jun 8, 2018Updated 8 years ago
- Enzyme-constrained genome-scale models in python☆39Oct 25, 2023Updated 2 years ago
- Encoding Dynamic Flux Balance Analysis in SBML☆13Sep 16, 2020Updated 6 years ago
- The consensus GEM for Saccharomyces cerevisiae☆137Updated this week
- Python package to study microbial communities using metabolic modeling.☆138Updated this week
- A Java-based software for visualizing and translating the KEGG PATHWAY database. Conversion of KGML files into BioPAX, SBML, GraphML, GML…☆21Jun 26, 2023Updated 3 years ago
- Please use opencobra/escher for current Escher development. That repository is the preferred home for the latest community-maintained ver…☆237May 12, 2026Updated 4 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Data-Driven Constraint-based analysis☆12Nov 4, 2022Updated 3 years ago
- Mass Action Stoichiometric Simulation (MASS) Toolbox☆13Aug 1, 2017Updated 9 years ago
- The COnstraint-Based Reconstruction and Analysis Toolbox. Documentation:☆291Updated this week
- Layered enrichment analysis tool enables facile enrichment using various statistics at once.☆20Jun 10, 2026Updated 4 months ago
- Genome scale metabolic models in SBML format☆11Nov 16, 2021Updated 4 years ago
- Temporal Pathway Synthesizer☆17Jun 28, 2024Updated 2 years ago
- A 3-Dimensional View of Human Metabolism and Disease☆33Feb 28, 2018Updated 8 years ago
- optlang - sympy based mathematical programming language☆271Sep 25, 2026Updated 2 weeks ago
- Connect the dots in networks.☆22Aug 28, 2020Updated 6 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Python package for building and analyzing models using ModelSEED☆31Feb 11, 2026Updated 8 months ago
- Files for the Genome Design/Genome Analytics Short-course organized by the SBRG☆10Nov 30, 2021Updated 4 years ago
- Build-A-Cell protocol for making liposomes☆13Jan 30, 2024Updated 2 years ago
- ☆11Jan 2, 2021Updated 5 years ago
- A COBRApy extension for genome-scale models of metabolism and expression (ME-models)☆40Jan 11, 2019Updated 7 years ago
- Automated synthetic microbial Community Design☆13Mar 26, 2021Updated 5 years ago
- ☆12Aug 15, 2023Updated 3 years ago