88 dependents
| Package | Description | Downloads/month |
|---|---|---|
| Escher: A Web Application for Building, Sharing, and Embedding Data-Rich Visuali... | 9K | |
| Python interface for running COMETS simulations and analyzing the results | 5K | |
| Stoichiometric metabolic modelling | 5K | |
| 4K | ||
| Microbial community modeling based on cobrapy. | 4K | |
| Python framework for building and analysing protein allocation models | 4K | |
| memote – the genome-scale metabolic model test suite | 4K | |
| A tool for assembling and comparing several types of Genome-Scale Metabolic Mode... | 3K | |
| 2K | ||
| Extract, Retrieve and Predict kcat values for a metabolic model | 2K | |
| Comprehensive Reconstruction Algorithm for ME-models (coralME) | 2K | |
| mergem is a python package and command-line tool for merging, comparing, and tra... | 2K | |
| Functions for data analysis support at the iAMB in RWTH Aachen. | 1K | |
| Repository for metworkpy, a python package for creating and working with network... | 1K | |
| Metabolic Engineering Workbench | 1K | |
| 1K | ||
| scCellFie infers metabolic activities from single-cell and spatial transcriptomi... | 1K | |
| StrainDesign is a python package for the computational design of metabolic netwo... | 1K | |
| Python library for hAndling metaData of METabolism. | 955 | |
| Python package for building and analyzing models using ModelSEED | 922 | |
| DEXOM implementation in python using cobrapy | 917 | |
| A graphical editor for the reconstruction, annotation and testing of genome-scal... | 883 | |
| A Qiime plugin for MICOM. | 853 | |
| Automated construction of enzyme-constrained models using ECMpy workflow. | 847 | |
| silvio is an environment for Simulation of Virtual Organisms. silvio contains se... | 819 | |
| Simulate metabolic flux distributions, gene knockouts, and dynamic modeling for ... | 810 | |
| refineGEMs: a python package intended to help with the curation of genome-scale ... | 808 | |
| WASP: A computational pipeline for protein functional annotation using structura... | 774 | |
| Multi-objective GEMs metabolic interaction inference | 770 | |
| Implementation of COBRA-k | 675 | |
| PyCoMo is a software package for generating and analysing compartmentalized comm... | 650 | |
| Enumeration and sampling of minimal pathways in metabolic (sub)networks. | 601 | |
| Retrieves kcat data and adds protein allocation constraints to stoichiometric me... | 581 | |
| MASSpy mathematical simulation program via BioSimulators-compliant command-line ... | 546 | |
| An integrated visual environment for metabolic modeling methods such as FBA, FVA... | 533 | |
| 531 | ||
| diel_models: | 529 | |
| Package to generate biomass objective function stoichiometric coefficients from ... | 516 | |
| A wrapper for running the Semi-Automated Metabolic Map Illustrator (SAMMI) using... | 512 | |
| FBC reference files for SBML model curation. | 438 | |
| Probabilistic Thermodynamic Analysis of metabolic networks | 390 | |
| Metabolic analysis of Logical models extracted from maps | 384 | |
| Module for enumerating minimal cut sets | 374 | |
| A Python package for calculating Genetic Minimal Intervention Sets (gMIS) in met... | 367 | |
| Framework to optimize metabolic models using evolutionary computation. | 366 | |
| A toolbox for gene expression-based prediction of metabolic alterations | 362 | |
| FastSL-py is an efficient algorithm to identify synthetic lethal gene/reaction s... | 358 | |
| COBRApy Compatible Genome Scale Metabolic Network Reconstruction Tool: Reconstru... | 358 | |
| Pheflux computational implementation | 353 | |
| Repository for the Python package intended to facilitate access to Rhea data fro... | 346 |
