mauriceling/advancesyntoolkit

Toolkit for Modelling and Simulation of Gene Expressions and Metabolism

Language: Python - Size: 157 MB - Last synced at: 1 day ago - Pushed at: 1 day ago - Stars: 12 - Forks: 44

SysBioChalmers/RAVEN

The RAVEN Toolbox for genome scale model reconstruction, curation and analysis.

Language: MATLAB - Size: 1010 MB - Last synced at: 2 days ago - Pushed at: 2 days ago - Stars: 109 - Forks: 56

jotech/gapseq

Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks

Language: R - Size: 411 MB - Last synced at: 4 days ago - Pushed at: 4 days ago - Stars: 180 - Forks: 37

opencobra/cobrapy

COBRApy is a package for constraint-based modeling of metabolic networks.

Language: Python - Size: 60.6 MB - Last synced at: 3 days ago - Pushed at: about 2 months ago - Stars: 498 - Forks: 220

cdanielmachado/smetana

SMETANA: a tool to analyse interactions in microbial communities

Language: Python - Size: 183 KB - Last synced at: 5 days ago - Pushed at: 5 days ago - Stars: 58 - Forks: 13

opencobra/cobratoolbox

The COnstraint-Based Reconstruction and Analysis Toolbox. Documentation:

Language: MATLAB - Size: 1.59 GB - Last synced at: 2 days ago - Pushed at: 3 days ago - Stars: 262 - Forks: 323

opencobra/COBRA.tutorials

Repository of tutorials for The COBRA Toolbox

Language: MATLAB - Size: 374 MB - Last synced at: 11 days ago - Pushed at: 11 days ago - Stars: 22 - Forks: 51

MetaSys-LISBP/PhysioFit

Estimation of extracellular fluxes and growth rate

Language: Python - Size: 12.3 MB - Last synced at: 11 days ago - Pushed at: 11 days ago - Stars: 9 - Forks: 5

Waschina/cobrar

COnstraint-based Reconstruction and Analysis (COBRA) of metabolic networks in R

Language: R - Size: 3.34 MB - Last synced at: 20 days ago - Pushed at: 20 days ago - Stars: 11 - Forks: 1

h-escoffier/PPMtoConc

Convert proteomics data from ppm to cellular concentrations (g/gDCW) for enzyme constrained modeling

Language: Python - Size: 706 KB - Last synced at: 20 days ago - Pushed at: 20 days ago - Stars: 0 - Forks: 0

ryanreyn/CarveWe

Repository for code associated with CarveWe project

Language: Python - Size: 122 MB - Last synced at: 23 days ago - Pushed at: 24 days ago - Stars: 1 - Forks: 0

COBREXA/COBREXA.jl

COnstraint Based Reconstruction and EXascale Analysis (in Julia)

Language: Julia - Size: 8.72 MB - Last synced at: 8 days ago - Pushed at: 8 days ago - Stars: 13 - Forks: 0

franciscozorrilla/metaGEM

:gem: An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data

Language: Python - Size: 262 MB - Last synced at: about 1 month ago - Pushed at: 10 months ago - Stars: 231 - Forks: 47

cnapy-org/CNApy

An integrated visual environment for metabolic modeling with common methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as thermodynamic methods, extended Minimal Cut Sets, OptKnock, RobustKnock, OptCouple and more!

Language: Python - Size: 6.78 MB - Last synced at: 14 days ago - Pushed at: 3 months ago - Stars: 54 - Forks: 8

GRONINGEN-MICROBIOME-CENTRE/MicrobeRX

MicrobeRX

Language: Python - Size: 199 MB - Last synced at: 14 days ago - Pushed at: about 2 months ago - Stars: 10 - Forks: 3

fabbio00/MasterThesis-MetabolicFluxPredictor

Public summary of my MSc thesis on metabolic flux prediction via Deep Learning

Size: 11.6 MB - Last synced at: 30 days ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 0

opencobra/memote

memote – the genome-scale metabolic model test suite

Language: HTML - Size: 12.1 MB - Last synced at: 19 days ago - Pushed at: over 1 year ago - Stars: 131 - Forks: 31

draeger-lab/R-DRUGS

Rationalized Discovery of Robust antiviral targets Using Genome-scale model Systems

Language: Jupyter Notebook - Size: 5.51 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 3 - Forks: 0

micom-dev/micom

Python package to study microbial communities using metabolic modeling.

Language: Python - Size: 48.7 MB - Last synced at: 17 days ago - Pushed at: 21 days ago - Stars: 97 - Forks: 17

SysBioChalmers/yeast-GEM

The consensus GEM for Saccharomyces cerevisiae

Language: MATLAB - Size: 71.1 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 104 - Forks: 49

BeeAnka/EFMlrs

Python package and workflow for EFM calculation via (mp)lrs and efmtool

Language: Python - Size: 5.37 MB - Last synced at: 20 days ago - Pushed at: over 2 years ago - Stars: 5 - Forks: 1

modsim/FluxML

A Universal Modeling Language for Metabolic Flux Analysis

Language: C++ - Size: 2.02 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 12 - Forks: 6

AuReMe/metage2metabo

From annotated genomes to metabolic screening in large scale microbiotas

Language: Jupyter Notebook - Size: 36.3 MB - Last synced at: 25 days ago - Pushed at: 25 days ago - Stars: 56 - Forks: 7

micom-dev/q2-micom

A Qiime plugin for MICOM.

Language: Python - Size: 67.6 MB - Last synced at: 26 days ago - Pushed at: 2 months ago - Stars: 10 - Forks: 5

klamt-lab/autopacmen

Retrieves kcat data and adds protein allocation constraints to stoichiometric metabolic models according to the sMOMENT method

Language: HTML - Size: 17.6 MB - Last synced at: 17 days ago - Pushed at: 2 months ago - Stars: 14 - Forks: 8

SysBioChalmers/ecFactory

A constraint-based method for prediction of metabolic engineering targets using ecModels of metabolism

Language: MATLAB - Size: 524 KB - Last synced at: about 1 month ago - Pushed at: 3 months ago - Stars: 8 - Forks: 4

MetaNetX/MNXref

MNXref: Reconciliation of metabolites and biochemical reactions for metabolic networks

Size: 1000 Bytes - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 1 - Forks: 0

jonas4climate/metabolic-cellular-modelling

Modelling of metabolic pathways, cell-based models (Cellular Potts) amongst others

Language: Jupyter Notebook - Size: 53.7 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0

IBCHgenomic/metabolic-json

a metabolic json parser and streamlit for BIGG database

Language: Python - Size: 301 KB - Last synced at: 2 months ago - Pushed at: 9 months ago - Stars: 0 - Forks: 0

IBCHgenomic/BIGG-metabolic-analyzer-API

a API to BIGG metabolic databases

Language: Python - Size: 189 KB - Last synced at: 2 months ago - Pushed at: 7 months ago - Stars: 0 - Forks: 0

cmandreani/models_Atacama

Script for analyzing metabolic data

Language: R - Size: 45.9 KB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0

Unaimend/cpdBoy

A small server + apis for different programming languages to convert cpds into more useful information.

Language: Go - Size: 3.08 MB - Last synced at: 4 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0

marouenbg/VFFVA

Dynamically load-balanced FVA through a hybrid MPI/OpenMP architecture.

Language: MATLAB - Size: 181 MB - Last synced at: 28 days ago - Pushed at: about 2 years ago - Stars: 4 - Forks: 1

SysBioChalmers/YeastsModels

Container of computational models of metabolism for different yeast species.

Language: HTML - Size: 13 MB - Last synced at: about 2 months ago - Pushed at: about 4 years ago - Stars: 2 - Forks: 1

htpusa/moomin.jl

From differential gene expression to metabolic changes

Language: Julia - Size: 119 KB - Last synced at: about 1 month ago - Pushed at: over 2 years ago - Stars: 4 - Forks: 1

m-jahn/fluctuator

R package to Import and Modify SVG (XML) Graphic Files

Language: R - Size: 3.31 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 20 - Forks: 2

ChristianLieven/memote-m-capsulatus

Genome-scale metabolic model of Methylococcus capsulatus.

Language: HTML - Size: 14 MB - Last synced at: 2 months ago - Pushed at: about 6 years ago - Stars: 12 - Forks: 3

carrascomj/mmodes

MMODES (Metabolic Models based Ordinary Differential Equations Simulation)

Language: Python - Size: 761 KB - Last synced at: about 1 month ago - Pushed at: over 4 years ago - Stars: 4 - Forks: 0

YosefLab/compassR

An R library for conducting analyses on COMPASS data.

Language: R - Size: 50.2 MB - Last synced at: 8 months ago - Pushed at: almost 4 years ago - Stars: 12 - Forks: 9

Robaina/MarineGEMs

A repository of reference genome-scale metabolic models of marine microbes

Language: Jupyter Notebook - Size: 1.66 MB - Last synced at: 7 days ago - Pushed at: 9 months ago - Stars: 0 - Forks: 0

SysBioChalmers/KMG060-Systems-Biology-course

KMG060 Systems Biology course - repo for students

Language: MATLAB - Size: 25.9 MB - Last synced at: about 1 month ago - Pushed at: over 1 year ago - Stars: 2 - Forks: 7

COBREXA/AbstractFBCModels.jl

General interface for flux-based constrained metabolic models

Language: Julia - Size: 620 KB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 0 - Forks: 0

Compcode1/risk-reduction-potentials

This small project demonstrated the value of leveraging metabolic profiles and related calculations in a synthetic dataset. This type of analysis greatly expands upon the binary Metabolic Syndrome classification.

Language: Jupyter Notebook - Size: 37.1 KB - Last synced at: about 2 months ago - Pushed at: 10 months ago - Stars: 0 - Forks: 0

Compcode1/metabolic-health-calculator

An algorithm that advances the use of Metabolic Syndrome metrics in individual health risk calculation.

Language: Jupyter Notebook - Size: 26.4 KB - Last synced at: about 2 months ago - Pushed at: 10 months ago - Stars: 0 - Forks: 0

univieCUBE/ScyNet

ScyNet: Visualisation of community metabolic models in Cytoscape

Language: Java - Size: 6.07 MB - Last synced at: 10 months ago - Pushed at: 10 months ago - Stars: 0 - Forks: 0

openCONTRABASS/CONTRABASS

Constraint-based model vulnerabilities analysis - Python analysis tool http://contrabass.unizar.es

Language: HTML - Size: 5.61 MB - Last synced at: 30 days ago - Pushed at: over 1 year ago - Stars: 3 - Forks: 0

rcolpo/pgp_reconstruction

Pathway-Guided Pruning Reconstruction of Genome-Scale Metabolic Models

Language: Python - Size: 4.76 MB - Last synced at: 9 months ago - Pushed at: over 1 year ago - Stars: 11 - Forks: 1

korem-lab/pymgpipe

Python implementation of mgpipe

Language: JetBrains MPS - Size: 13.8 MB - Last synced at: 9 days ago - Pushed at: over 1 year ago - Stars: 7 - Forks: 0

AsmusTM/Automatic_growth_modeller

Automatic fitting of growth models to growth data

Language: R - Size: 78.1 KB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 0 - Forks: 0

cnapy-org/CNApy-projects

:world_map: A repository of CNApy projects

Language: Tcl - Size: 5.95 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 6 - Forks: 1

SBRG/cobrame

A COBRApy extension for genome-scale models of metabolism and expression (ME-models)

Language: Python - Size: 1.61 MB - Last synced at: 12 months ago - Pushed at: over 6 years ago - Stars: 33 - Forks: 17

resendislab/corda

An implementation of genome-scale model reconstruction using Cost Optimization Reaction Dependency Assessment by Schultz et. al

Language: Python - Size: 1.6 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 21 - Forks: 8

Matteopaluh/KEMET

KEGG Module Evaluation Tool

Language: Python - Size: 178 MB - Last synced at: about 1 year ago - Pushed at: over 1 year ago - Stars: 22 - Forks: 5

zhanglab/GEM-iWP3

Metabolic model of the Shewanella piezotolerans WP3

Size: 57.6 KB - Last synced at: about 1 year ago - Pushed at: almost 8 years ago - Stars: 1 - Forks: 1

marouenbg/PhD-thesis

Latex code base of my doctoral disseration.

Language: TeX - Size: 20.2 MB - Last synced at: about 1 year ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0

MolecularBioinformatics/thermophilesNAD

Contains NAD biosynthesis model and python scripts to simulate the steady-state calculations.

Language: Jupyter Notebook - Size: 9.09 MB - Last synced at: about 1 year ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0

AberystwythSystemsBiology/dimedbpy

Python wrapper for the DIMEdb REST API.

Language: Python - Size: 43.9 KB - Last synced at: 2 days ago - Pushed at: almost 3 years ago - Stars: 5 - Forks: 0

SysBioChalmers/Yarrowia_lipolytica_W29-GEM

Genome-scale model of Yarrowia lipolytica.

Language: MATLAB - Size: 3.61 MB - Last synced at: about 1 month ago - Pushed at: almost 4 years ago - Stars: 8 - Forks: 8

CABSEL/DeltaFBA

DeltaFBA is a set of MATLAB functions that employs constraint-based modeling, in combination with differential gene expression data, to evaluate changes in the intracellular flux distribution between two conditions.

Language: MATLAB - Size: 894 MB - Last synced at: about 1 year ago - Pushed at: almost 4 years ago - Stars: 4 - Forks: 1

PiotrTymoszuk/collagen_pca

Expression, biological and clinical relevance of the collagen pathway genes in prostate carcinoma

Language: R - Size: 144 MB - Last synced at: 9 months ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0

tubanlee/MM

Infer metabolic directions from moment differences of mass-weighted intensity distributions

Language: R - Size: 4.17 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 186 - Forks: 14

sirno/misosoup

Minimal Supplying Community Search with constraint-based optimization methods.

Language: Python - Size: 1.1 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 12 - Forks: 0

Gibbons-Lab/isb_course_2023

Materials and presentation for the 2023 ISB Microbiome course.

Language: Jupyter Notebook - Size: 245 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 15 - Forks: 7

zhanglab/psamm

Curation and analysis of metabolic models

Language: Python - Size: 104 MB - Last synced at: 2 days ago - Pushed at: almost 2 years ago - Stars: 34 - Forks: 15

Gibbons-Lab/isb_course_2022

Materials and presentation for the 2022 ISB Microbiome course.

Language: Jupyter Notebook - Size: 258 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 23 - Forks: 8

Waschina/Eutropia

Agent-based metabolic modelling of microbial communities in time and continuous µ-meter-scale space

Language: R - Size: 20.7 MB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 0

Kivazque/SYSBIO

SYSBIO repository of ENG4BIO group within Universitat Autònoma de Barcelona (UAB) mainly regarding K. phaffi modelling.

Size: 11.7 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

pwendering/model-prm

Constraint-based modeling of photorespiratory mutants using metabolomics in TMFA

Language: MATLAB - Size: 204 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 1 - Forks: 0

klamt-lab/astheriscPackage

Search for and find thermodynamic advantages for product synthesis using metabolic single-species community models

Language: MATLAB - Size: 7.24 MB - Last synced at: over 1 year ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0

gibbslab/exp2flux

An R package to incorporate in a continuous way the gene-expression data as FBA flux boundaries in a metabolic model. Also, functions to calculate and plot the differences between model fluxes in different metabolic scenarios was included. This is an implementation of the algorithm described by Lee et al. (2012) in DOI: 10.1186/1752-0509-6-73.

Language: R - Size: 1.19 MB - Last synced at: over 1 year ago - Pushed at: about 8 years ago - Stars: 2 - Forks: 0

cdiener/proliferation

Project to study proliferation and metabolic liabilities across several thousand cancer samples.

Language: R - Size: 29.2 MB - Last synced at: over 1 year ago - Pushed at: about 8 years ago - Stars: 0 - Forks: 3

ThierryMondeel/FOSBE_2016

"Maps for when the living gets tough: Maneuvering through a hostile energy landscape" | Mondeel, Thierry D.G.A. Rehman, Samrina Zhang, Yanfei Verma, Malkhey Dürre, Peter Barberis, Matteo Westerhoff, Hans V. | 2016 | IFAC-PapersOnLine |

Language: HTML - Size: 1.83 MB - Last synced at: over 1 year ago - Pushed at: almost 5 years ago - Stars: 0 - Forks: 1

CaileanCarter/tuatara

Reconstruct and handle many genome-scale metabolic models in ScrumPy

Language: Python - Size: 822 KB - Last synced at: over 1 year ago - Pushed at: about 3 years ago - Stars: 6 - Forks: 0

CaileanCarter/ScrumPy-Notebook

Learn metabolic modelling and using ScrumPy for modelling.

Language: HTML - Size: 1.52 MB - Last synced at: over 1 year ago - Pushed at: about 3 years ago - Stars: 0 - Forks: 0

svijayakumar32/multi-objective-optimization-of-gut-community-metabolic-model

Source code and information for journal article Social dynamics and modeling of chrono-nutrition

Language: MATLAB - Size: 17.2 MB - Last synced at: over 1 year ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0

jclachance/BOFdat

Generate biomass objective function stoichiometric coefficients for genome-scale models from experimental data

Language: Jupyter Notebook - Size: 15.5 MB - Last synced at: 8 months ago - Pushed at: almost 2 years ago - Stars: 26 - Forks: 6

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)

Language: Python - Size: 32.2 KB - Last synced at: over 1 year ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0

pwendering/RENZO_paper

Impose constraints on enzyme abundances ratios in enzyme-constraint metabolic models

Language: MATLAB - Size: 1.71 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 1 - Forks: 0

juanvillada/iJV803

iJV803: a genome-scale metabolic model for Methylomicrobium album BG8

Size: 8.54 MB - Last synced at: over 1 year ago - Pushed at: about 4 years ago - Stars: 1 - Forks: 0

MetabolicAtlas/MetabolicAtlas

Open source genome-scale metabolic models of human and model animals

Language: Vue - Size: 66 MB - Last synced at: 11 months ago - Pushed at: almost 2 years ago - Stars: 18 - Forks: 2

LMSE/kbistable

Code for Model-based Design of Bistable Cell Factories for Metabolic Engineering

Language: Matlab - Size: 93.3 MB - Last synced at: almost 2 years ago - Pushed at: over 7 years ago - Stars: 0 - Forks: 0

LMSE/emilio Fork of shyamsrinivasan/emilio

Source code for EMILiO: A fast algorithm for genome-scale strain design.

Language: MATLAB - Size: 1.63 MB - Last synced at: almost 2 years ago - Pushed at: almost 5 years ago - Stars: 0 - Forks: 0

MetaSys-LISBP/pseudomonas_metabolic_burden

Flux response of Pseudomonas putida to increased levels of metabolic burden

Language: R - Size: 1.6 MB - Last synced at: about 1 year ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0

gibbslab/minval

An R package to identify orphan metabolites and evaluate the mass and charge balance of stoichiometric reactions. The package also includes functions to characterize and write models in TSV and SBML formats, extract all reactants, products, metabolite names and compartments from a metabolic reconstruction.

Language: R - Size: 7.1 MB - Last synced at: over 1 year ago - Pushed at: almost 3 years ago - Stars: 2 - Forks: 1

BigDataInSilicoBiologyGroup/IgemRNA

IgemRNA is an open access toolbox for transcriptome data statistical and biochemical network topology-based analysis. IgemRNA was developed in the MATLAB environment in order to take advantage of the up-to-date and most commonly distributed GSM modelling tool Cobra Toolbox 3.0 and spreadsheet file capabilities.

Language: MATLAB - Size: 16.2 MB - Last synced at: over 1 year ago - Pushed at: about 3 years ago - Stars: 2 - Forks: 1

pwendering/PRESTO

PRESTO: Correction of turnover numbers in enzyme-constraint metabolic models

Language: MATLAB - Size: 92.2 MB - Last synced at: over 1 year ago - Pushed at: about 2 years ago - Stars: 2 - Forks: 0

pwendering/COMMIT

COMMIT: Community-dependent gap-filling considering metabolite leakage

Language: MATLAB - Size: 1.78 GB - Last synced at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 2

MetaSys-LISBP/IsoSim Fork of pierremillard/KIEs

IsoSim: stoichiometric, kinetic and isotopic modeling of metabolic systems

Language: R - Size: 221 KB - Last synced at: 10 months ago - Pushed at: over 5 years ago - Stars: 6 - Forks: 3

VirtualMetabolicHuman/AGORA

The aim of this repository is to maintain, refine, and expand the AGORA collection of genome-scale metabolic reconstructions for human gut microbes through the use of issues. Please note that pull requests will be automatically closed.

Size: 679 MB - Last synced at: about 2 years ago - Pushed at: over 4 years ago - Stars: 17 - Forks: 7

CompBtBs/FalseDiscoveriesAnalysis

Adjusting for false discoveries in constraint- and sampling-based differential metabolic flux analysis

Language: Jupyter Notebook - Size: 24.1 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 2 - Forks: 0

MetaSys-LISBP/acetate_regulation

Kinetic modeling of glucose and acetate metabolisms in E. coli

Language: Component Pascal - Size: 21.6 MB - Last synced at: about 1 year ago - Pushed at: about 4 years ago - Stars: 5 - Forks: 2

Micromeda/pygenprop

A python library for programmatic usage of EBI InterPro Genome Properties.

Language: Python - Size: 4.52 MB - Last synced at: 6 days ago - Pushed at: about 2 years ago - Stars: 9 - Forks: 4

cnapy-org/CNApy-guide

📕 CNApy Guide

Language: HTML - Size: 8.74 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 3 - Forks: 0

sriram-lab/egem

epigenome scale metabolic modeling for cancer metabolism

Language: MATLAB - Size: 478 MB - Last synced at: about 2 years ago - Pushed at: about 3 years ago - Stars: 3 - Forks: 2

findCP/findCPcli

findCP CLI package - find ChokePoint reactions in genome-scale metabolic models

Language: Python - Size: 5.6 MB - Last synced at: 24 days ago - Pushed at: over 3 years ago - Stars: 3 - Forks: 0

micom-dev/media

Environmental growth media for MICOM.

Language: Jupyter Notebook - Size: 4.67 MB - Last synced at: about 2 years ago - Pushed at: over 2 years ago - Stars: 5 - Forks: 1

cfrioux/fluto

Language: Python - Size: 308 KB - Last synced at: 3 months ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 1

jcapels/jupyterhub_metabolic_modelling

A jupyter hub docker app for metabolic modelling using mewpy, troppo, cobra, etfl and cplex.

Language: Shell - Size: 26.4 KB - Last synced at: about 2 years ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

klamt-lab/CommModelPy

Create stoichiometric metabolic network models of single-species or multi-species communities

Language: Python - Size: 6.54 MB - Last synced at: 26 days ago - Pushed at: almost 4 years ago - Stars: 3 - Forks: 0

sriram-lab/MetOncoFit

Common biochemical and topological attributes of metabolic genes recurrently dysregulated in tumors.

Language: HTML - Size: 358 MB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 6