7 results found Sort:

opencobra
cobrapy opencobra
216
461
gpl-2.0
37
COBRApy is a package for constraint-based modeling of metabolic networks.
flux sbml cobra python modeling metabolism sbml-model cell-design biochemistry bioinformatics sbml-simulation systems-biology metabolic-models metabolic-network strain-engineering computational-biology
Created 2012-11-02
2,738 commits to devel branch, last one 9 days ago
sorgerlab
indra sorgerlab
66
175
bsd-2-clause
23
INDRA (Integrated Network and Dynamical Reasoning Assembler) is an automated model assembly system interfacing with NLP systems and databases to collect knowledge, and through a process of assembly, p...
nlp pysb sbml indra biology modeling bioinformatics systems-biology computational-biology
Created 2014-08-11
13,965 commits to master branch, last one a day ago
opencobra
memote opencobra
26
126
apache-2.0
20
memote – the genome-scale metabolic model test suite
sbml cobra unit-testing standardization metabolic-models metabolic-reconstruction
Created 2016-05-13
893 commits to develop branch, last one 8 months ago
AMICI-dev
AMICI AMICI-dev
30
108
other
12
Advanced Multilanguage Interface to CVODES and IDAS
ode idas pysb sbml cvode petab cvodes python modeling simulation hacktoberfest sensitivities systemsbiology kinetic-modeling mechanistic-models parameter-estimation sensitivity-analysis adjoint-sensitivities differentialequations forward-sensitivities
Created 2015-10-05
3,933 commits to master branch, last one 2 days ago
PEtab-dev
PEtab PEtab-dev
12
59
mit
17
PEtab - an SBML and TSV based data format for parameter estimation problems in systems biology
sbml modelling sbml-model data-format hacktoberfest combine-archive systems-biology parameter-estimation
Created 2018-11-27
500 commits to main branch, last one about a month ago
iVis-at-Bilkent
newt iVis-at-Bilkent
27
53
lgpl-3.0
11
A web application to visualize and edit pathway models
sif newt sbgn sbml editor layout biology pathways celldesigner visualization bioinformatics pathway-models systems-biology pathway-analysis network-visualization web-based-visualization
Created 2017-01-24
1,758 commits to master branch, last one 26 days ago
SciML
SBMLToolkit.jl SciML
9
40
mit
9
SBML differential equation and chemical reaction model (Gillespie simulations) for Julia's SciML ModelingToolkit
ode sbml julia sciml systems-biology gillespie-algorithm differential-equations chemical-reaction-networks quantitative-systems-pharmacology
Created 2021-06-16
500 commits to main branch, last one about a month ago