Chimera: An easy to use pipeline for Genome based Metabolic Network reconstruction, evaluation and visualization.
☆20Oct 21, 2022Updated 4 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 5 years ago
- Python package to study microbial communities using metabolic modeling.☆141Updated this week
- mergem is a python package and command-line tool for merging, comparing, and translating genome-scale metabolic models☆15Aug 20, 2025Updated last year
- ReFramed: metabolic modeling package☆63Jun 26, 2026Updated 4 months ago
- Teaching materials for SymbNET course: from MAGs to GEMs☆16Jan 8, 2024Updated 2 years ago
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- Supplementary data for co-occurrence manuscript☆11Dec 19, 2019Updated 6 years ago
- Uncover organisms' metabolic blueprints☆18Jun 18, 2024Updated 2 years ago
- ☆12Feb 20, 2026Updated 8 months ago
- CarveMe: genome-scale metabolic model reconstruction☆224Sep 12, 2025Updated last year
- SMETANA: a tool to analyse interactions in microbial communities☆79May 6, 2025Updated last year
- Collection of genome-scale metabolic models, genomes, and scripts for At-LSPHERE bacterial culture collection☆10Jul 25, 2023Updated 3 years ago
- CobraMod is a Python 3 open-source package which enables modifying and extending genome-scale metabolic models with metabolic pathway inf…☆20Updated this week
- Metagenomics workflow from sequencing data to Metagenome-Assembled Genomes (MAGs)☆11May 27, 2022Updated 4 years ago
- Inference of microbial interaction networks from large-scale heterogeneous abundance data☆97Oct 9, 2025Updated last year
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Pipelines used in the lab.☆16Mar 26, 2025Updated last year
- From annotated genomes to metabolic screening in large scale microbiotas☆78Oct 16, 2026Updated 3 weeks ago
- Predict oxygen, temperature, salinity, and pH preferences of bacteria and archaea from a genome☆73Mar 16, 2026Updated 7 months ago
- Gene Inactivation Moderated by Metabolism, Metabolomics, and Expression (COBRApy)☆14May 7, 2016Updated 10 years ago
- ☆24Oct 11, 2024Updated 2 years ago
- An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within micro…☆275May 13, 2026Updated 5 months ago
- An integrated visual environment for metabolic modeling methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as…☆71Updated this week
- 🤝 Tool for mining KEGG pathways completeness data from eggNOG-mapper annotations☆43Aug 30, 2026Updated 2 months ago
- agent based modelling☆39Aug 28, 2024Updated 2 years ago
- 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.
- refineGEMs is a python package inteded to help with the curation of genome-scale metabolic models (GEMS).☆22Updated this week
- memote – the genome-scale metabolic model test suite☆152Aug 14, 2025Updated last year
- ☆27Dec 9, 2022Updated 3 years ago
- This repository contains all source code in the reconstructor python package, installation instructions, important file dependencies, and…☆26Feb 6, 2026Updated 9 months ago
- Automated synthetic microbial Community Design☆13Mar 26, 2021Updated 5 years ago
- A collection of M models downloaded from published studies☆18Feb 18, 2016Updated 10 years ago
- ☆24Oct 19, 2023Updated 3 years ago
- ☆10Aug 29, 2025Updated last year
- 张金龙R语言简明教程☆10Jan 10, 2022Updated 4 years ago
- 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.
- Template for creating a GitHub Classroom assignment that assesses a student's ability to use a GitHub Classroom assignment.☆16Feb 18, 2023Updated 3 years ago
- Calculation of the Percentage of Conserved Proteins following Qin, Xie et al. 2014 but using DIAMOND instead of BLASTP for alignments.☆29Aug 3, 2026Updated 3 months ago
- Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks☆231Oct 27, 2026Updated last week
- MUSiCC: A marker genes based framework for metagenomic normalization and accurate profiling of gene abundances in the microbiome☆18Nov 7, 2019Updated 7 years ago
- Analyzer of Gene and Species Trees☆11Aug 8, 2016Updated 10 years ago
- This repository contains the definitive copy of the biochemistry and metadata used to construct models using the ModelSEED/ProbAnno appro…☆71Oct 6, 2026Updated last month
- cameo - computer aided metabolic engineering & optimization☆129Nov 7, 2022Updated 4 years ago