Chimera: An easy to use pipeline for Genome based Metabolic Network reconstruction, evaluation and visualization.
☆20Oct 21, 2022Updated 3 years ago
Alternatives and similar repositories for chimera
Users that are interested in chimera are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Higher-Order Co-occurrence☆12Nov 9, 2021Updated 4 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
- Teaching materials for SymbNET course: from MAGs to GEMs☆15Jan 8, 2024Updated 2 years ago
- SMETANA: a tool to analyse interactions in microbial communities☆74May 6, 2025Updated last year
- CarveMe: genome-scale metabolic model reconstruction☆218Sep 12, 2025Updated 11 months ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Supplementary data for co-occurrence manuscript☆10Dec 19, 2019Updated 6 years ago
- Inference of microbial interaction networks from large-scale heterogeneous abundance data☆93Oct 9, 2025Updated 10 months ago
- Pipelines used in the lab.☆15Mar 26, 2025Updated last year
- agent based modelling☆39Aug 28, 2024Updated 2 years ago
- ReFramed: metabolic modeling package☆64Jun 26, 2026Updated 2 months ago
- ☆24Oct 11, 2024Updated last year
- 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
- Python package to study microbial communities using metabolic modeling.☆136Aug 27, 2026Updated last week
- 🤝 Tool for mining KEGG pathways completeness data from eggNOG-mapper annotations☆43Aug 30, 2026Updated last week
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- ☆27Dec 9, 2022Updated 3 years ago
- ☆24Oct 19, 2023Updated 2 years ago
- ☆12Feb 20, 2026Updated 6 months ago
- Automated synthetic microbial Community Design☆13Mar 26, 2021Updated 5 years ago
- Predict oxygen, temperature, salinity, and pH preferences of bacteria and archaea from a genome☆69Mar 16, 2026Updated 5 months ago
- Variational Auto Encoders for learning binding signatures of transcription factors☆15Mar 14, 2024Updated 2 years ago
- Parse NCBI CD-search results to find and visualise the domain architecture of secondary metabolite synthases☆26Nov 9, 2022Updated 3 years ago
- Package that facilitates pulling database entries from KEGG via its REST API☆14Aug 12, 2026Updated 3 weeks ago
- An integrated visual environment for metabolic modeling methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as…☆70Updated this week
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- a pipeline to cluster proteins into families☆10Apr 1, 2020Updated 6 years ago
- A Hierarchical Approach to Pangenomics Inference☆13Apr 15, 2024Updated 2 years ago
- Python interface for running COMETS simulations and analyzing the results☆16May 19, 2026Updated 3 months ago
- ☆17Jan 12, 2026Updated 7 months ago
- A constraint-based method for prediction of metabolic engineering targets using ecModels of metabolism☆15Feb 12, 2025Updated last year
- A standalone program that reads files created with the graphical network editor Escher and converts them to files in community standard f…☆16Jul 29, 2026Updated last month
- Analyzer of Gene and Species Trees☆11Aug 8, 2016Updated 10 years ago
- Uncover organisms' metabolic blueprints☆18Jun 18, 2024Updated 2 years ago
- A container for all enzyme constrained models created by GECKO.☆18Jul 4, 2022Updated 4 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.
- A QIIME 2 plugin for interaction with the Greengenes2 database☆34Oct 1, 2024Updated last year
- memote – the genome-scale metabolic model test suite☆151Aug 14, 2025Updated last year
- Build-A-Cell protocol for making liposomes☆13Jan 30, 2024Updated 2 years ago
- Software tool for metabolic modelling in Systems Biology☆10Jul 24, 2026Updated last month
- Drawing 'dendrogram' using 'ggtree'☆13Apr 29, 2026Updated 4 months ago
- Constraint-Based Reconstruction and EXascale Analysis☆46Oct 23, 2024Updated last year
- BRENDA parser in python☆23May 16, 2022Updated 4 years ago