Enzyme-constrained genome-scale models in python
☆36Oct 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. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆18Aug 29, 2025Updated 7 months ago
- teemi: A Python package for reproducible and FAIR microbial strain construction. Simulate the entire dbtl-cycle, generate genetic parts, …☆43Mar 15, 2026Updated 2 weeks ago
- StrainDesign is a python package for the computational design of metabolic networks and based on COBRApy☆49Mar 17, 2026Updated last week
- ☆10Oct 21, 2023Updated 2 years ago
- Uncover organisms' metabolic blueprints☆13Jun 18, 2024Updated last year
- NordVPN Threat Protection Pro™ • AdTake your cybersecurity to the next level. Block phishing, malware, trackers, and ads. Lightweight app that works with all browsers.
- Dynamic FBA for use with COBRApy metabolic models☆10Sep 26, 2023Updated 2 years ago
- Workflow to download, process, and explore microbial RNA-seq data from NCBI SRA☆17Feb 29, 2024Updated 2 years ago
- Dynamic Flux Balance analysis in Python☆12Jan 22, 2016Updated 10 years ago
- COnstraint Based Reconstruction and EXascale Analysis (in Julia)☆18Sep 26, 2025Updated 6 months ago
- Supplementary data for co-occurrence manuscript☆10Dec 19, 2019Updated 6 years ago
- Toolbox for including enzyme constraints on a genome-scale model.☆81Mar 15, 2026Updated 2 weeks ago
- ☆24Oct 19, 2023Updated 2 years ago
- ☆26Dec 9, 2022Updated 3 years ago
- 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
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- ☆10Dec 15, 2023Updated 2 years ago
- framed: a metabolic modeling package for python☆26Nov 7, 2019Updated 6 years ago
- Teaching materials for SymbNET course: from MAGs to GEMs☆14Jan 8, 2024Updated 2 years ago
- ETFL: A formulation for flux balance models accounting for expression, thermodynamics, and resource allocation constraints☆16Jul 8, 2025Updated 8 months ago
- General low-level API☆50Jul 18, 2022Updated 3 years ago
- A container for all enzyme constrained models created by GECKO.☆16Jul 4, 2022Updated 3 years ago
- cameo - computer aided metabolic engineering & optimization☆123Nov 7, 2022Updated 3 years ago
- Symbolic Kinetic Models with Python☆35Jun 4, 2025Updated 9 months ago
- Enzyme models that take into account kinetics, allostery and thermodynamics☆28Sep 3, 2024Updated last year
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- memote – the genome-scale metabolic model test suite☆145Aug 14, 2025Updated 7 months ago
- Machine Learning models for in vitro enzyme kinetic parameter prediction☆78Mar 16, 2026Updated last week
- Pathway-Guided Pruning Reconstruction of Genome-Scale Metabolic Models☆12Nov 28, 2023Updated 2 years ago
- Multi-dimensional, trans-omics metabolic maps.☆54Nov 13, 2025Updated 4 months ago
- Easily download genomes and build BLAST/Bowtie indexes in Python☆22Sep 30, 2022Updated 3 years ago
- StrainXpress is a de novo assembly method which base on overlap-layout-consensus (OLC) paradigm and can fast and accurately assemble high…☆13Mar 7, 2024Updated 2 years ago
- The standard for open-source GEMs on GitHub☆21Oct 26, 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…☆16Mar 12, 2026Updated 2 weeks ago
- Constraint-based modeling framework for the enumeration of pathway analysis concepts☆14Jul 6, 2023Updated 2 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.
- D3.js based visualizations of cobrapy metabolic models☆50Mar 10, 2020Updated 6 years ago
- An integrated visual environment for metabolic modeling methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as…☆63Mar 13, 2026Updated 2 weeks ago
- ☆17May 13, 2025Updated 10 months ago
- Binnacle: Using Scaffolds to Improve the Contiguity and Quality of Metagenomic Bins☆15Dec 7, 2021Updated 4 years ago
- BiGMeC - Biosynthetic Gene cluster Metabolic pathway Constructor☆16May 14, 2023Updated 2 years ago
- Metabolic Engineering Workbench☆41Jun 9, 2024Updated last year
- This repository contains all source code in the reconstructor python package, installation instructions, important file dependencies, and…☆24Feb 6, 2026Updated last month