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Metabolic Models Python Packages

Python packages with the GitHub topic metabolic-models. Sorted by relevance, with stars and monthly downloads.
opencobra
cobra

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

58K 560 233
micom-dev
micom

Python package to study microbial communities using metabolic modeling.

3K 128 23
opencobra
memote

memote – the genome-scale metabolic model test suite

3K 146 33
aureme
metage2metabo

Automatic reconstruction of draft metabolic networks with Pathway Tools and graph-based metabolic analysis

3K 71 7
sysbiolux
wildkcat

Extract, Retrieve and Predict kcat values for a metabolic model

2K 6 0
GRONINGEN-MICROBIOME-CENTRE
microberx

MicrobeRX

762 17 4
klamt-lab
autopacmen-paulocracy

The AutoPACMEN package

744 17 8
zhanglab
psamm

Curation and analysis of metabolic models

739 37 15
ARB-Lab
commmodelpy

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

662 3 0
cdiener
corda

Genome-scale model construction with CORDA

592 25 8
cnapy-org
cnapy

An integrated visual environment for metabolic modeling 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!

546 66 18
jclachance
bofdat

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

526 27 8
BeeAnka
efmlrs

Extracts EFMs from result file of mplrs and decompresses EFMs from efmtool and mplrs results that have been compressed with EFMlrs

514 6 1
micom-dev
q2-micom

A Qiime plugin for MICOM.

512 10 6
qwerty239qwe
pipegem

Processing and integrating data with genome-scale metabolic models (GEM)

482 0 2
findCP
findcpcore

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

445 1 0
sirno
misosoup

No description available

388 16 1
cdanielmachado
smetana

SMETANA: a tool to analyse interactions in microbial communities

378 70 14
findCP
findcpcli

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

327 3 0
openCONTRABASS
contrabass

Constraint-based model vulnerabilities analysis

244 3 1
charlesrocabert
gba

Growth Balance Analysis for Python

235 1 1
AberystwythSystemsBiology
dimedbpy

Python wrapper for DIMEdbs REST API.

218 5 0
korem-lab
pymgpipe

Python implementation of mgpipe

213 7 1
Micromeda
pygenprop

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

200 9 5
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