CarveMe: genome-scale metabolic model reconstruction
☆218Sep 12, 2025Updated 11 months ago
Alternatives and similar repositories for carveme
Users that are interested in carveme are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- SMETANA: a tool to analyse interactions in microbial communities☆74May 6, 2025Updated last year
- Python package to study microbial communities using metabolic modeling.☆135Aug 27, 2026Updated last week
- Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks☆223Aug 26, 2026Updated last week
- ReFramed: metabolic modeling package☆64Jun 26, 2026Updated 2 months ago
- An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within micro…☆274May 13, 2026Updated 3 months ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- memote – the genome-scale metabolic model test suite☆151Aug 14, 2025Updated last year
- Chimera: An easy to use pipeline for Genome based Metabolic Network reconstruction, evaluation and visualization.☆20Oct 21, 2022Updated 3 years ago
- COBRApy is a package for constraint-based modeling of metabolic networks.☆584Updated this week
- EMBL GEMs: A collection of GEnome-scale Models for bacterial species☆33Mar 5, 2019Updated 7 years ago
- agent based modelling☆39Aug 28, 2024Updated 2 years ago
- From annotated genomes to metabolic screening in large scale microbiotas☆77Jul 27, 2026Updated last month
- Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes☆339Aug 16, 2026Updated 2 weeks ago
- The RAVEN Toolbox for genome scale model reconstruction, curation and analysis.☆131Updated this week
- ☆51Jun 11, 2025Updated last year
- 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.
- framed: a metabolic modeling package for python☆26Nov 7, 2019Updated 6 years ago
- cameo - computer aided metabolic engineering & optimization☆128Nov 7, 2022Updated 3 years ago
- This repository contains the definitive copy of the biochemistry and metadata used to construct models using the ModelSEED/ProbAnno appro…☆70Updated this week
- Python package for building and analyzing models using ModelSEED☆31Feb 11, 2026Updated 6 months ago
- Pathway-based and phylogenetically adjusted quantification of competition and cooperation between microbial species☆20Mar 17, 2021Updated 5 years ago
- A scalable high-throughput metabolic and biogeochemical functional trait profiler☆232Mar 24, 2026Updated 5 months ago
- The COnstraint-Based Reconstruction and Analysis Toolbox. Documentation:☆287Aug 24, 2026Updated last week
- Classify metagenomic contigs as eukaryotic or prokaryotic☆46Feb 17, 2023Updated 3 years ago
- From genomes to phenotypes: Traitar, the microbial trait analyzer☆69Aug 12, 2019Updated 7 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Supplementary data for co-occurrence manuscript☆10Dec 19, 2019Updated 6 years ago
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆671Aug 7, 2026Updated 3 weeks ago
- The BiGG Models website server☆92Nov 7, 2019Updated 6 years ago
- A machine learning-based tool for predicting metabolic modules in incomplete bacterial genomes.☆23Aug 14, 2025Updated last year
- KEGG Module Evaluation Tool☆33Mar 5, 2026Updated 5 months ago
- The aim of this repository is to maintain, refine, and expand the AGORA collection of genome-scale metabolic reconstructions for human gu…☆25Dec 10, 2020Updated 5 years ago
- ☆24Oct 19, 2023Updated 2 years ago
- Toolbox for comparative genomics of MAGs☆92Jul 30, 2026Updated last month
- antiSMASH☆263Aug 24, 2026Updated last week
- 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.
- Higher-Order Co-occurrence☆12Nov 9, 2021Updated 4 years ago
- Mackinac: A bridge between ModelSEED and COBRApy☆19Aug 20, 2018Updated 8 years ago
- ☆21Dec 15, 2020Updated 5 years ago
- A container for all enzyme constrained models created by GECKO.☆18Jul 4, 2022Updated 4 years ago
- Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes☆76Aug 13, 2026Updated 3 weeks ago
- HMM-based identification and categorization of iron genes and iron gene operons in genomes and metagenomes☆69May 9, 2026Updated 3 months ago
- Inference of microbial interaction networks from large-scale heterogeneous abundance data☆93Oct 9, 2025Updated 10 months ago