Toepfer-Lab / cobramodLinks
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.
☆15Updated last month
Alternatives and similar repositories for cobramod
Users that are interested in cobramod are comparing it to the libraries listed below
Sorting:
- StrainDesign is a python package for the computational design of metabolic networks and based on COBRApy☆46Updated last month
- An integrated visual environment for metabolic modeling with common methods such as FBA, FVA and Elementary Flux Modes, and advanced feat…☆58Updated this week
- Untargeted metabolomics workflow for large-scale data processing and analysis implemented in Snakemake☆27Updated 9 months ago
- Python package for building and analyzing models using ModelSEED☆23Updated 5 months ago
- BiGMeC - Biosynthetic Gene cluster Metabolic pathway Constructor☆15Updated 2 years ago
- Metabolic Engineering Workbench☆40Updated last year
- Using MASST or fastMASST, adding metadata onto a tree ontology for microbes☆21Updated last week
- Maximum likelihood structural phylogenetics by including Foldseek 3Di characters. Supporting Information for Puente-Lelievre et al. 2023n…☆22Updated 5 months ago
- ☆21Updated 2 years ago
- Python Implementation of Codon Adaption Index☆37Updated 2 years ago
- A high-fidelity E. coli RNA-seq compendium☆32Updated 4 years ago
- A machine learning model for the prediction of optimal growth temperature of microorganisms and enzyme catalytic optima☆61Updated 5 years ago
- Dashboard for analysis of liquid chromatography (tandem) mass spectrometry data.☆32Updated last week
- A package to cluster and visualise MS/MS spectral data☆11Updated 4 years ago
- DeepECtransformer☆28Updated last year
- ☆11Updated last year
- Code for LazyAF pipeline☆20Updated last year
- ☆14Updated last week
- Enzyme-constrained genome-scale models in python☆28Updated last year
- ☆25Updated 2 years ago
- This repository contains the definitive copy of the biochemistry and metadata used to construct models using the ModelSEED/ProbAnno appro…☆62Updated 8 months ago
- Natural Product Discovery tools -- a toolkit containing various pipelines for in silico analysis of natural product mass spectrometry da…☆28Updated 3 years ago
- ☆28Updated last year
- Hierarchical orderings for mass spectrometry data. Canonically pronounced "chemis-tree".☆30Updated 2 years ago
- Pathway-Guided Pruning Reconstruction of Genome-Scale Metabolic Models☆12Updated last year
- ☆11Updated 10 months ago
- A Python package for mapping sequence aligned data onto protein structures☆36Updated 4 years ago
- Toolbox for including enzyme constraints on a genome-scale model.☆78Updated 2 weeks ago
- A collection of M models downloaded from published studies☆16Updated 9 years ago
- Protein structure alignment and search algorithm☆73Updated this week