Teaching materials for cobrapy, cameo, escher and DD-DeCaF
☆28Jul 12, 2022Updated 4 years ago
Alternatives and similar repositories for tutorials
Users that are interested in tutorials are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A standalone program that reads files created with the graphical network editor Escher and converts them to files in community standard f…☆16Jul 29, 2026Updated last month
- Mackinac: A bridge between ModelSEED and COBRApy☆19Aug 20, 2018Updated 8 years ago
- Repository of tutorials for The COBRA Toolbox☆25Updated this week
- ☆11Oct 21, 2023Updated 2 years ago
- Toolbox for including enzyme constraints on a genome-scale model.☆91Updated this week
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Kyoto Encylopedia of Genes and Genomes (KEGG) NetworkX Topological parser automates downloading, parsing, and converting from a KEGG Mark…☆12May 8, 2024Updated 2 years ago
- A constraint-based method for prediction of metabolic engineering targets using ecModels of metabolism☆15Feb 12, 2025Updated last year
- An integrated visual environment for metabolic modeling methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as…☆70Aug 15, 2026Updated 2 weeks ago
- Python package for modelling enzyme reactions using Monte carlo sampling from parameter distributions☆33Jul 15, 2025Updated last year
- A COBRApy extension for genome-scale models of metabolism and expression (ME-models)☆40Jan 11, 2019Updated 7 years ago
- PePPer - Personalized Perturbation Profiler☆11Oct 4, 2018Updated 7 years ago
- ReFramed: metabolic modeling package☆64Jun 26, 2026Updated 2 months ago
- D3.js based visualizations of cobrapy metabolic models☆52Mar 10, 2020Updated 6 years ago
- ☆20Aug 29, 2025Updated last year
- 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 python implementation of flux balance analysis to model microbial metabolism☆28Feb 25, 2023Updated 3 years ago
- Mass Action Stoichiometric Simulation (MASS) Toolbox☆13Aug 1, 2017Updated 9 years ago
- An implementation of genome-scale model reconstruction using Cost Optimization Reaction Dependency Assessment by Schultz et. al☆26Jul 15, 2024Updated 2 years ago
- Model predictive control (MPC) for fermentations☆12Feb 28, 2019Updated 7 years ago
- StrainDesign is a python package for the computational design of metabolic networks and based on COBRApy☆53Aug 23, 2026Updated last week
- Multi-dimensional, trans-omics metabolic maps.☆56Nov 13, 2025Updated 9 months ago
- Chimera: An easy to use pipeline for Genome based Metabolic Network reconstruction, evaluation and visualization.☆20Oct 21, 2022Updated 3 years ago
- R package for fitting kinetic models with one or more state variables to chemical degradation data☆13Jun 22, 2026Updated 2 months ago
- COBRApy is a package for constraint-based modeling of metabolic networks.☆584Updated this week
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- EMBL GEMs: A collection of GEnome-scale Models for bacterial species☆33Mar 5, 2019Updated 7 years ago
- cy3sbml: SBML for Cytoscape 3☆15Jan 22, 2026Updated 7 months ago
- Constraint-based Metabolic Modeling Course☆11Jul 25, 2022Updated 4 years ago
- プログラミング演習1/実践データサイエンス☆11Jul 9, 2026Updated last month
- Python package for common tasks in bioinformatic.☆12Sep 24, 2025Updated 11 months ago
- ☆10Sep 29, 2023Updated 2 years ago
- Mechanistic models in fermentation☆22Aug 30, 2022Updated 4 years ago
- the toolbox for Microbial and personalized GEM, REactiobiome and community NEtwork modelling☆11Feb 3, 2024Updated 2 years ago
- Reproducible Research in Finse☆10Aug 5, 2020Updated 6 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.
- ☆27Dec 9, 2022Updated 3 years ago
- Asynchronous job and file i/o management for containers☆15Dec 9, 2022Updated 3 years ago
- Snakemake with pytest example☆11Jul 18, 2020Updated 6 years ago
- Framework for Object Oriented Modelling of Bioprocesses☆18Feb 18, 2021Updated 5 years ago
- Encoding Dynamic Flux Balance Analysis in SBML☆13Sep 16, 2020Updated 5 years ago
- Code used for biomarker discovery using party (building conditional random forests)☆15May 18, 2018Updated 8 years ago
- multi-tool QC for minion data☆11May 28, 2018Updated 8 years ago