D3.js based visualizations of cobrapy metabolic models
☆51Mar 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…☆68May 28, 2026Updated last month
- An implementation of genome-scale model reconstruction using Cost Optimization Reaction Dependency Assessment by Schultz et. al☆26Jul 15, 2024Updated last year
- memote – the genome-scale metabolic model test suite☆147Aug 14, 2025Updated 10 months ago
- StrainDesign is a python package for the computational design of metabolic networks and based on COBRApy☆52Updated this week
- Constraint-based Metabolic Modeling Course☆11Jul 25, 2022Updated 3 years ago
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- Python, modeling and Flux balance analysis tutorials for the undergraduate Systems Biology course in Amsterdam☆14Jun 30, 2019Updated 7 years ago
- cameo - computer aided metabolic engineering & optimization☆127Nov 7, 2022Updated 3 years ago
- COBRApy is a package for constraint-based modeling of metabolic networks.☆571Jun 6, 2026Updated 3 weeks ago
- Mackinac: A bridge between ModelSEED and COBRApy☆19Aug 20, 2018Updated 7 years ago
- ReFramed: metabolic modeling package☆64May 4, 2026Updated last month
- Teaching materials for cobrapy, cameo, escher and DD-DeCaF☆28Jul 12, 2022Updated 3 years ago
- ☆10Oct 21, 2023Updated 2 years ago
- This repository contains all source code in the reconstructor python package, installation instructions, important file dependencies, and…☆26Feb 6, 2026Updated 4 months ago
- Reconstruction algorithms for Python☆26Oct 23, 2024Updated last year
- 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.
- Analysis of ensembles of metabolic network reconstructions☆22May 20, 2026Updated last month
- This repository contains the definitive copy of the biochemistry and metadata used to construct models using the ModelSEED/ProbAnno appro…☆69Updated this week
- ☆19Aug 29, 2025Updated 10 months ago
- The consensus GEM for Saccharomyces cerevisiae☆127Jun 21, 2026Updated last week
- Python package for building and analyzing models using ModelSEED☆30Feb 11, 2026Updated 4 months ago
- Temporal Pathway Synthesizer☆17Jun 28, 2024Updated 2 years ago
- ☆10Jun 8, 2018Updated 8 years ago
- Python package to study microbial communities using metabolic modeling.☆133Jun 22, 2026Updated last week
- Generating graph structures from OWL ontologies☆12Nov 21, 2017Updated 8 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.
- 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…☆236May 12, 2026Updated last month
- Data-Driven Constraint-based analysis☆12Nov 4, 2022Updated 3 years ago
- Layered enrichment analysis tool enables facile enrichment using various statistics at once.☆19Jun 10, 2026Updated 3 weeks ago
- A 3-Dimensional View of Human Metabolism and Disease☆32Feb 28, 2018Updated 8 years ago
- Genome scale metabolic models in SBML format☆11Nov 16, 2021Updated 4 years ago
- Connect the dots in networks.☆21Aug 28, 2020Updated 5 years ago
- Files for the Genome Design/Genome Analytics Short-course organized by the SBRG☆10Nov 30, 2021Updated 4 years ago
- The generic genome-scale metabolic model of Homo sapiens☆168Updated this week
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- ☆12Aug 15, 2023Updated 2 years ago
- ☆24Oct 19, 2023Updated 2 years ago
- SMETANA: a tool to analyse interactions in microbial communities☆71May 6, 2025Updated last year
- EMBL GEMs: A collection of GEnome-scale Models for bacterial species☆32Mar 5, 2019Updated 7 years ago
- Gene-tree Reconciliation Algorithm with MUL-trees for Polyploid Analysis☆16Jul 25, 2025Updated 11 months ago
- MTAE-based 5UTR design model☆10Jan 23, 2024Updated 2 years ago
- An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within micro…☆266May 13, 2026Updated last month