cobrapy
There are 33 repositories under cobrapy topic.
SBRG/ssbio
A Python framework for structural systems biology
micom-dev/micom
Python package to study microbial communities using metabolic modeling.
klamt-lab/straindesign
StrainDesign is a python package for the computational design of metabolic networks and based on COBRApy
SBRG/cobrame
A COBRApy extension for genome-scale models of metabolism and expression (ME-models)
resendislab/corda
An implementation of genome-scale model reconstruction using Cost Optimization Reaction Dependency Assessment by Schultz et. al
ModelSEED/ModelSEEDpy
Python package for building and analyzing models using ModelSEED
MetExplore/miom
Constraint-based modeling of metabolism using Mixed Integer Optimization
mjenior/riptide
Reaction Inclusion by Parsimony and Transcript Distribution
biosustain/multitfa
Multivariate thermodynamics-based metabolic flux analysis in Python.
BeeAnka/EFMlrs
Python package and workflow for EFM calculation via (mp)lrs and efmtool
SBRG/ecolime
Data and tools necessary to construct iJL1678b-ME, a genome-scale model of E. coli K-12 MG1655 metabolism and expression
findCP/findCPcli
findCP CLI package - find ChokePoint reactions in genome-scale metabolic models
openCONTRABASS/CONTRABASS
Constraint-based model vulnerabilities analysis - Python analysis tool http://contrabass.unizar.es
biosimulators/Biosimulators_COBRApy
COBRApy biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
CompBtBs/FalseDiscoveriesAnalysis
Adjusting for false discoveries in constraint- and sampling-based differential metabolic flux analysis
tracykuper/mimics
Multi-scale model of Metabolism In Cellular Systems
earmingol/cobra_utils
Utility to simplify obtaining information from genome-scale models as well as their manipulation. This implementation is available only for working with COBRApy.
findCP/findCPcore
findCP core package - find ChokePoint reactions in genome-scale metabolic models
MetExplore/dexom-python
diversity-based enumeration of optimal context-specific metabolic networks using the cobrapy library
ModelSEED/KB-ModelSEEDCOBRA
KBase SDK module for model analysis apps created and managed by the ModelSEED team
OSS-Lab/FBAhv
FBAhv: FBA analysis of host-virus metabolic model (read related publication at: https://www.life-science-alliance.org/content/4/1/e202000869)
pyubero/quantitative_mutations
A class based on COBRApy to handle quantitative mutations on metabolic models.
stolarczyk/metaboLITE
Shiny app for visualization of the toy GENREs
vjz3qz/cancer-metabolic-analysis
Bioinformatics project analyzing cancer metabolism using computational modeling and analysis. The project was awarded the GIDI-UP: Summer Research Award and includes data, models, and scripts.
c-mayer/ECMproject
ECMproject is a standalone python program, which enumerates Elementary Conversion Modes (ECMs) of metabolic models.
DeepenData/NAMU2021b_old
Proyecto para las redes metabolicas humanas.
duartebred/fba-Flux-Balance-Analysis
Repositório para apresentação de código e posterior análise, desenvolvido pelo grupo 1 para a UC Biologia de Sistemas, do Mestraddo em Bioinformática, ano lectivo 23-24.
ElshaymaaAhmed/Build-Model-Task-One
Computational Biology Techniques 2, Glucose Pathway
ElshaymaaAhmed/Computational-Biology-Techniques2-Final-Project
Pathways That Harvest Chemical Reactions
gulermalaria/iPfal17_curation
iPfal17 genome-scale metabolic reconstruction; lipid metabolism curation
jackmeersman/ComputationalBiologyResearch
Repository of code and information developed for computational biology research at UGA
Fxe/kb_escher
Escher Service for KBase
resendislab/cobrame-docker
Docker image for a full ME model stack.