Enzyme-constrained genome-scale models in python
☆35Oct 25, 2023Updated 2 years ago
Alternatives and similar repositories for geckopy
Users that are interested in geckopy are comparing it to the libraries listed below
Sorting:
- ☆18Aug 29, 2025Updated 6 months ago
- Uncover organisms' metabolic blueprints☆13Jun 18, 2024Updated last year
- ☆10Oct 21, 2023Updated 2 years ago
- StrainDesign is a python package for the computational design of metabolic networks and based on COBRApy☆49Updated this week
- Dynamic FBA for use with COBRApy metabolic models☆10Sep 26, 2023Updated 2 years ago
- teemi: A Python package for reproducible and FAIR microbial strain construction. Simulate the entire dbtl-cycle, generate genetic parts, …☆43Jan 19, 2026Updated last month
- Enumerating biosynthetic pathways in metabolic networks☆13Feb 5, 2025Updated last year
- framed: a metabolic modeling package for python☆26Nov 7, 2019Updated 6 years ago
- COnstraint Based Reconstruction and EXascale Analysis (in Julia)☆18Sep 26, 2025Updated 5 months ago
- Toolbox for including enzyme constraints on a genome-scale model.☆81Updated this week
- GPRuler, an open-source computational framework to automate the reconstruction process of Gene-Protein-Reaction (GPR) rules within metabo…☆11Oct 11, 2022Updated 3 years ago
- Easily download genomes and build BLAST/Bowtie indexes in Python☆22Sep 30, 2022Updated 3 years ago
- Metabolic Engineering Workbench☆41Jun 9, 2024Updated last year
- ☆10Dec 15, 2023Updated 2 years ago
- Supplementary data for co-occurrence manuscript☆10Dec 19, 2019Updated 6 years ago
- ☆26Dec 9, 2022Updated 3 years ago
- D3.js based visualizations of cobrapy metabolic models☆50Mar 10, 2020Updated 5 years ago
- memote – the genome-scale metabolic model test suite☆145Aug 14, 2025Updated 6 months ago
- General low-level API☆50Jul 18, 2022Updated 3 years ago
- Dynamic Flux Balance analysis in Python☆11Jan 22, 2016Updated 10 years ago
- Enzyme models that take into account kinetics, allostery and thermodynamics☆28Sep 3, 2024Updated last year
- Multi-dimensional, trans-omics metabolic maps.☆54Nov 13, 2025Updated 3 months ago
- ☆11Aug 26, 2022Updated 3 years ago
- A Python molecular biology CAD tool with a dead-simple user interface☆12Dec 8, 2022Updated 3 years ago
- Teaching materials for SymbNET course: from MAGs to GEMs☆14Jan 8, 2024Updated 2 years ago
- cameo - computer aided metabolic engineering & optimization☆124Nov 7, 2022Updated 3 years ago
- An integrated visual environment for metabolic modeling methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as…☆62Dec 22, 2025Updated 2 months ago
- Binnacle: Using Scaffolds to Improve the Contiguity and Quality of Metagenomic Bins☆15Dec 7, 2021Updated 4 years ago
- Retrieves kcat data and adds protein allocation constraints to stoichiometric metabolic models according to the sMOMENT method. Also chec…☆17Feb 28, 2025Updated last year
- Python package simulating artificial selection on microbial communities☆14Aug 15, 2023Updated 2 years ago
- A container for all enzyme constrained models created by GECKO.☆16Jul 4, 2022Updated 3 years ago
- Pathway-Guided Pruning Reconstruction of Genome-Scale Metabolic Models☆12Nov 28, 2023Updated 2 years ago
- Machine Learning models for in vitro enzyme kinetic parameter prediction☆75Feb 28, 2026Updated last week
- Symbolic Kinetic Models with Python☆34Jun 4, 2025Updated 9 months ago
- Constraint-based modeling framework for the enumeration of pathway analysis concepts☆14Jul 6, 2023Updated 2 years ago
- Short overhangs design for DNA assembly☆15Jun 8, 2022Updated 3 years ago
- An amino acid sequence annotator☆17May 15, 2025Updated 9 months ago
- BiGMeC - Biosynthetic Gene cluster Metabolic pathway Constructor☆16May 14, 2023Updated 2 years ago
- CobraMod is a Python 3 open-source package which enables modifying and extending genome-scale metabolic models with metabolic pathway inf…☆16Feb 25, 2026Updated last week