CobraMod is a Python 3 open-source package which enables modifying and extending genome-scale metabolic models with metabolic pathway information from various metabolic pathways databases or user-curated data sets.
☆20May 11, 2026Updated 5 months ago
Alternatives and similar repositories for cobramod
Users that are interested in cobramod 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…☆71Updated this week
- StrainDesign is a python package for the computational design of metabolic networks and based on COBRApy☆53Oct 7, 2026Updated 3 weeks ago
- refineGEMs is a python package inteded to help with the curation of genome-scale metabolic models (GEMS).☆22Oct 19, 2026Updated last week
- Uncover organisms' metabolic blueprints☆18Jun 18, 2024Updated 2 years ago
- COnstraint Based Reconstruction and EXascale Analysis (in Julia)☆20Sep 26, 2025Updated last year
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Python package for building and analyzing models using ModelSEED☆31Feb 11, 2026Updated 8 months 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
- ReFramed: metabolic modeling package☆63Jun 26, 2026Updated 4 months ago
- Constraint-Based Reconstruction and EXascale Analysis☆46Oct 23, 2024Updated 2 years ago
- mergem is a python package and command-line tool for merging, comparing, and translating genome-scale metabolic models☆15Aug 20, 2025Updated last year
- FLYCOP (FLexible sYnthetic Consortium OPtimization)☆12Sep 24, 2018Updated 8 years ago
- Visualization of metabolic models in Makie.☆22Feb 15, 2025Updated last year
- An implementation of genome-scale model reconstruction using Cost Optimization Reaction Dependency Assessment by Schultz et. al☆27Jul 15, 2024Updated 2 years ago
- Enzyme-constrained genome-scale models in python☆39Oct 25, 2023Updated 3 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.
- This repository contains all source code in the reconstructor python package, installation instructions, important file dependencies, and…☆26Feb 6, 2026Updated 8 months ago
- cameo - computer aided metabolic engineering & optimization☆129Nov 7, 2022Updated 3 years ago
- R package to Import and Modify SVG (XML) Graphic Files☆29Nov 1, 2024Updated last year
- Collection of genome-scale metabolic models, genomes, and scripts for At-LSPHERE bacterial culture collection☆10Jul 25, 2023Updated 3 years ago
- ☆24Oct 19, 2023Updated 3 years ago
- Curation and analysis of metabolic models☆37Aug 8, 2023Updated 3 years ago
- Protocol for finding informative protein families and then using them to score metagenomic sets.☆10Oct 11, 2021Updated 5 years ago
- API Wrapper for the IUCN Red List.☆11Jun 29, 2023Updated 3 years ago
- Pathway-Guided Pruning Reconstruction of Genome-Scale Metabolic Models☆13Nov 28, 2023Updated 2 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.
- Cython bindings and Python interface to Opal, a SIMD-accelerated database search aligner.☆11Mar 25, 2026Updated 7 months ago
- Reconstruction algorithms for Python☆28Oct 23, 2024Updated 2 years ago
- SMETANA: a tool to analyse interactions in microbial communities☆79May 6, 2025Updated last year
- ☆16Aug 30, 2024Updated 2 years ago
- The sources of the web LFortran GUI interface☆15May 6, 2026Updated 5 months ago
- Constraint-based Metabolic Modeling Course☆12Jul 25, 2022Updated 4 years ago
- From annotated genomes to metabolic screening in large scale microbiotas☆77Oct 16, 2026Updated 2 weeks ago
- Scripts to build high-quality genome-scale metabolic model by using a deep neural network to guide gapfilling☆19Oct 14, 2026Updated 2 weeks ago
- Repository for the usage of Squidly.☆15Sep 3, 2026Updated last month
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Genome browser for thousands of representative bacteria and archaea☆12Sep 8, 2026Updated last month
- C++ lossless and lossy mass spectrometry compression☆15Sep 16, 2021Updated 5 years ago
- Differentiable constraint-based metabolic models☆14Oct 15, 2026Updated 2 weeks ago
- ☆11Sep 21, 2026Updated last month
- Source code for the paper 'FARM: Functional Group-Aware Representations for Small Molecules☆16Sep 18, 2025Updated last year
- Package that facilitates pulling database entries from KEGG via its REST API☆15Aug 12, 2026Updated 2 months ago
- A simple python web app to visualise google location history☆16Jul 16, 2024Updated 2 years ago