ModelSEED / ModelSEEDDatabase
This repository contains the definitive copy of the biochemistry and metadata used to construct models using the ModelSEED/ProbAnno approach
☆59Updated last month
Alternatives and similar repositories for ModelSEEDDatabase:
Users that are interested in ModelSEEDDatabase are comparing it to the libraries listed below
- Python package for building and analyzing models using ModelSEED☆22Updated 2 weeks ago
- CBMPy is a Python based platform for constraint based modelling and analysis.☆19Updated 10 months ago
- Python package to study microbial communities using metabolic modeling.☆97Updated 2 weeks ago
- Generate biomass objective function stoichiometric coefficients for genome-scale models from experimental data☆27Updated last year
- EMBL GEMs: A collection of GEnome-scale Models for bacterial species☆25Updated 6 years ago
- SMETANA: a tool to analyse interactions in microbial communities☆58Updated 4 years ago
- This repository contains all source code in the reconstructor python package, installation instructions, important file dependencies, and…☆18Updated this week
- Toolbox for including enzyme constraints on a genome-scale model.☆70Updated 5 months ago
- ReFramed: metabolic modeling package☆58Updated 7 months ago
- Enzyme-constrained genome-scale models in python☆25Updated last year
- StrainDesign is a python package for the computational design of metabolic networks and based on COBRApy☆41Updated 2 weeks ago
- Chimera: An easy to use pipeline for Genome based Metabolic Network reconstruction, evaluation and visualization.☆17Updated 2 years ago
- BiGMeC - Biosynthetic Gene cluster Metabolic pathway Constructor☆14Updated last year
- Computation of Microbial Ecosystems in Time and Space☆22Updated last week
- The RAVEN Toolbox for genome scale model reconstruction, curation and analysis.☆107Updated last month
- A highly scalable, user-interactive tool for the large scale analysis of Biosynthetic Gene Clusters data☆78Updated 3 months ago
- Pathway-Guided Pruning Reconstruction of Genome-Scale Metabolic Models☆12Updated last year
- Dynamic FBA for use with COBRApy metabolic models☆10Updated last year
- CarveMe: genome-scale metabolic model reconstruction☆165Updated 6 months ago
- memote – the genome-scale metabolic model test suite☆131Updated last year
- Mackinac: A bridge between ModelSEED and COBRApy☆19Updated 6 years ago
- Predict oxygen, temperature, salinity, and pH preferences of bacteria and archaea from a genome☆45Updated 2 months ago
- A tool for representing genomic potential and transcriptomic expression into KEGG pathways☆54Updated 7 months ago
- ☆38Updated 3 months ago
- ☆23Updated 5 months ago
- A brief, quick and dirty introduction to Sequence Similarity Networks☆21Updated 2 years ago
- CobraMod is a Python 3 open-source package which enables modifying and extending genome-scale metabolic models with metabolic pathway inf…☆13Updated 7 months ago
- scripts for predicting natural product activity from biosynthetic gene cluster sequences☆23Updated 2 years ago
- Teaching materials for SymbNET course: from MAGs to GEMs☆13Updated last year