DD-DeCaF / tutorials
Teaching materials for cobrapy, cameo, escher and DD-DeCaF
☆22Updated 2 years ago
Related projects ⓘ
Alternatives and complementary repositories for tutorials
- Generate biomass objective function stoichiometric coefficients for genome-scale models from experimental data☆26Updated last year
- A COBRApy extension for genome-scale models of metabolism and expression (ME-models)☆34Updated 5 years ago
- ReFramed: metabolic modeling package☆56Updated 3 months ago
- StrainDesign is a python package for the computational design of metabolic networks and based on COBRApy☆39Updated last month
- Toolbox for including enzyme constraints on a genome-scale model.☆67Updated last month
- CBMPy is a Python based platform for constraint based modelling and analysis.☆18Updated 6 months ago
- D3.js based visualizations of cobrapy metabolic models☆41Updated 4 years ago
- An integrated visual environment for metabolic modeling with common methods such as FBA, FVA and Elementary Flux Modes, and advanced feat…☆46Updated this week
- This repository contains the definitive copy of the biochemistry and metadata used to construct models using the ModelSEED/ProbAnno appro…☆57Updated last month
- CobraMod is a Python 3 open-source package which enables modifying and extending genome-scale metabolic models with metabolic pathway inf…☆13Updated 3 months ago
- Enzyme-constrained genome-scale models in python☆25Updated last year
- Enumerating biosynthetic pathways in metabolic networks☆12Updated last year
- memote – the genome-scale metabolic model test suite☆128Updated 10 months ago
- Python package to study microbial communities using metabolic modeling.☆94Updated this week
- Python package for creating, calibrating and simulating RBA models☆11Updated last year
- EMBL GEMs: A collection of GEnome-scale Models for bacterial species☆25Updated 5 years ago
- Computation of Microbial Ecosystems in Time and Space☆19Updated 2 weeks ago
- Python package for building and analyzing models using ModelSEED☆19Updated 2 weeks ago
- A collection of M models downloaded from published studies☆15Updated 8 years ago
- ☆22Updated 4 years ago
- ETFL: A formulation for flux balance models accounting for expression, thermodynamics, and resource allocation constraints☆16Updated 3 months ago
- Dynamic FBA for use with COBRApy metabolic models☆10Updated last year
- Retrieves kcat data and adds protein allocation constraints to stoichiometric metabolic models according to the sMOMENT method☆13Updated this week
- Repository of tutorials for The COBRA Toolbox☆18Updated 2 weeks ago
- Mackinac: A bridge between ModelSEED and COBRApy☆16Updated 6 years ago
- The BiGG Models website server☆80Updated 5 years ago
- Toolkit for Modelling and Simulation of Gene Expressions and Metabolism☆12Updated this week
- Web scraper to retrieve protein data catalogued by the CAZy, UniProt, NCBI, GTDB and PDB websites/databases.☆12Updated this week
- cameo - computer aided metabolic engineering & optimization☆113Updated 2 years ago
- BRENDA parser in python☆20Updated 2 years ago