pypi.org "systems-biology" keyword
View the packages on the pypi.org package registry that are tagged with the "systems-biology" keyword.
phoskintime 0.1.0
PhosKinTime is a Python toolkit for ODE‑based modeling of phosphorylation kinetics and transcript...1 version - Latest release: about 17 hours ago
dingo-walk 0.1.6 💰
High dimensional polytope sampling in Python with a set of tools for metabolic network sampling a...7 versions - Latest release: 10 days ago - 300 downloads last month - 52 stars on GitHub - 1 maintainer
bio2bel-wikipathways 0.2.3
A package for converting Wikipathways to BEL27 versions - Latest release: about 6 years ago - 801 downloads last month - 3 stars on GitHub - 2 maintainers
biosimulators-amici 0.1.24
BioSimulators-compliant command-line interface to the AMICI simulation program <https://github.co...29 versions - Latest release: almost 2 years ago - 2 dependent repositories - 768 downloads last month - 3 stars on GitHub - 2 maintainers
biosimulators-rbapy 0.0.4
BioSimulators-compliant command-line interface to the RBApy simulation program.4 versions - Latest release: over 3 years ago - 3 dependent repositories - 158 downloads last month - 0 stars on GitHub - 2 maintainers
spycone 0.2.1
A splicing-aware time course network enricher18 versions - Latest release: 10 months ago - 1 dependent repositories - 518 downloads last month - 7 stars on GitHub - 1 maintainer
biosimulators-pysces 0.1.33
BioSimulators-compliant command-line interface to the PySCeS simulation program <http://pysces.so...31 versions - Latest release: 6 months ago - 2 dependent repositories - 647 downloads last month - 1 stars on GitHub - 2 maintainers
bel2scm 0.0.4
A package for creating causal graphs in pyro4 versions - Latest release: almost 5 years ago - 165 downloads last month - 10 stars on GitHub - 1 maintainer
diffupath 0.0.3
Compute diffusion scores over networks from biological databases3 versions - Latest release: almost 5 years ago - 1 dependent repositories - 93 downloads last month - 6 stars on GitHub - 1 maintainer
metevolsim 1.0.0
MetEvolSim (Metabolome Evolution Simulator) Python Package29 versions - Latest release: over 1 year ago - 1 dependent repositories - 669 downloads last month - 5 stars on GitHub - 1 maintainer
kisao 2.15.3
Utilities for working with the Kinetic Simulation Algorithm Ontology (KiSAO)21 versions - Latest release: almost 4 years ago - 5 dependent packages - 20 dependent repositories - 2.06 thousand downloads last month - 10 stars on GitHub - 2 maintainers
pyrthomas 0.0.10
Python implementation for René Thomas's Framework6 versions - Latest release: over 3 years ago - 1 dependent repositories - 231 downloads last month - 0 stars on GitHub - 1 maintainer
Top 6.8% on pypi.org
62 versions - Latest release: 5 months ago - 7 dependent packages - 14 dependent repositories - 7.74 thousand downloads last month - 14 stars on GitHub - 2 maintainers
petab 0.5.0
Parameter estimation tabular data62 versions - Latest release: 5 months ago - 7 dependent packages - 14 dependent repositories - 7.74 thousand downloads last month - 14 stars on GitHub - 2 maintainers
wc-lang 0.0.1
Language for describing whole-cell models1 version - Latest release: over 1 year ago - 1 dependent repositories - 8 stars on GitHub - 2 maintainers
commmodelpy 0.0.3
The commmodelpy package2 versions - Latest release: over 3 years ago - 97 downloads last month - 3 stars on GitHub - 1 maintainer
mergem 1.1.0
mergem is a python package and command-line tool for merging, comparing, and translating genome-s...31 versions - Latest release: about 1 year ago - 1 dependent repositories - 1.11 thousand downloads last month - 5 stars on GitHub - 2 maintainers
Top 6.3% on pypi.org
29 versions - Latest release: 9 months ago - 4 dependent packages - 10 dependent repositories - 2.86 thousand downloads last month - 185 stars on GitHub - 1 maintainer
indra 1.23.0
Integrated Network and Dynamical Reasoning Assembler29 versions - Latest release: 9 months ago - 4 dependent packages - 10 dependent repositories - 2.86 thousand downloads last month - 185 stars on GitHub - 1 maintainer
couzinswarm 0.0.3
Simulating fish swarming behavior with the model by Iain Couzin et al.3 versions - Latest release: about 6 years ago - 1 dependent repositories - 84 downloads last month - 6 stars on GitHub - 1 maintainer
sbml2julia 0.1.1
Optimization tool based on ODE discretisation.2 versions - Latest release: over 4 years ago - 1 dependent repositories - 76 downloads last month - 5 stars on GitHub - 1 maintainer
netmedpy 0.1.4
NetMedPy evaluates network localization (statistical analysis of the largest connected component/...5 versions - Latest release: 5 months ago - 188 downloads last month - 9 stars on GitHub - 1 maintainer
physiofit 3.4.0
Calculate extracellular fluxes from metabolite concentrations and biomass data31 versions - Latest release: 10 months ago - 3 dependent repositories - 1.08 thousand downloads last month - 6 stars on GitHub - 2 maintainers
sccellfie 0.4.3
A tool for inferring metabolic activities from single-cell and spatial transcriptomics23 versions - Latest release: 27 days ago - 560 downloads last month - 3 stars on GitHub - 1 maintainer
datanator-query 0.1
A python API to for querying datanator DB server1 version - Latest release: over 5 years ago - 1 dependent repositories - 51 downloads last month - 1 maintainer
dysregnet 0.1.0
DysRegNet6 versions - Latest release: about 1 year ago - 1 dependent repositories - 189 downloads last month - 2 stars on GitHub - 1 maintainer
diffupy 0.0.5
Compute diffusion scores over networks5 versions - Latest release: almost 5 years ago - 1 dependent repositories - 134 downloads last month - 7 stars on GitHub - 1 maintainer
bio2bel-kegg 0.3.0
A package for converting KEGG gene sets into BEL22 versions - Latest release: over 4 years ago - 1 dependent repositories - 575 downloads last month - 13 stars on GitHub - 2 maintainers
django-disbi 0.0.2
A Django app framework for managing and integrating systems biology data.1 version - Latest release: over 8 years ago - 1 dependent repositories - 32 downloads last month - 3 stars on GitHub - 1 maintainer
Top 7.3% on pypi.org
45 versions - Latest release: 3 months ago - 2 dependent packages - 3 dependent repositories - 1.34 thousand downloads last month - 239 stars on GitHub - 3 maintainers
pypesto 0.5.5
python-based Parameter EStimation TOolbox45 versions - Latest release: 3 months ago - 2 dependent packages - 3 dependent repositories - 1.34 thousand downloads last month - 239 stars on GitHub - 3 maintainers
rebop 0.9.1
A fast stochastic simulator for chemical reaction networks8 versions - Latest release: 3 months ago - 3.47 thousand downloads last month - 46 stars on GitHub - 1 maintainer
corda 0.5.1
Genome-scale model construction with CORDA15 versions - Latest release: over 2 years ago - 1 dependent package - 2 dependent repositories - 463 downloads last month - 21 stars on GitHub - 1 maintainer
geckopy 2.0.2
Methods for using the GECKO model with cobrapy11 versions - Latest release: about 4 years ago - 1 dependent repositories - 391 downloads last month - 70 stars on GitHub - 2 maintainers
wc-onto 0.0.2
Ontology for whole-cell modeling1 version - Latest release: about 5 years ago - 1 dependent repositories - 56 downloads last month - 1 stars on GitHub - 2 maintainers
Top 9.7% on pypi.org
25 versions - Latest release: 19 days ago - 1 dependent package - 2 dependent repositories - 3.95 thousand downloads last month - 16 stars on GitHub - 2 maintainers
sme 1.9.0
Spatial Model Editor python bindings25 versions - Latest release: 19 days ago - 1 dependent package - 2 dependent repositories - 3.95 thousand downloads last month - 16 stars on GitHub - 2 maintainers
pymgpipe 0.16.10
Community level microbiome metabolic modeling in Python5 versions - Latest release: over 1 year ago - 152 downloads last month - 7 stars on GitHub - 1 maintainer
scribl 0.8.2
A system for the semantic capture of relationships in biological literature5 versions - Latest release: 3 months ago - 157 downloads last month - 2 stars on GitHub - 1 maintainer
boolsi 1.0.4
BoolSi is a tool for distributed simulations and analysis of Boolean networks8 versions - Latest release: over 4 years ago - 1 dependent repositories - 180 downloads last month - 7 stars on GitHub - 1 maintainer
bel-commons 0.3.1
A web application exposing core PyBEL functionalities2 versions - Latest release: almost 5 years ago - 1 dependent repositories - 92 downloads last month - 4 stars on GitHub - 1 maintainer
bio2bel-go 0.0.1
A package for converting GO to BEL1 version - Latest release: over 6 years ago - 1 dependent repositories - 53 downloads last month - 1 stars on GitHub - 1 maintainer
Top 4.6% on pypi.org
92 versions - Latest release: about 3 years ago - 6 dependent packages - 18 dependent repositories - 6.63 thousand downloads last month - 130 stars on GitHub - 2 maintainers
pybel 0.15.5
Parsing, validation, compilation, and data exchange of Biological Expression Language (BEL)92 versions - Latest release: about 3 years ago - 6 dependent packages - 18 dependent repositories - 6.63 thousand downloads last month - 130 stars on GitHub - 2 maintainers
ggshu 0.1.0
Grammar of Graphics for shu.1 version - Latest release: over 1 year ago - 68 downloads last month - 44 stars on GitHub - 1 maintainer
stochpy 1.1.2
StochPy (Stochastic modeling in Python) provides several stochastic simulation algorithms to simu...13 versions - Latest release: over 11 years ago - 1 dependent repositories - 353 downloads last month - 40 stars on GitHub - 2 maintainers
bio2bel-interpro 0.2.1
A package for converting InterPro to BEL3 versions - Latest release: about 6 years ago - 1 dependent repositories - 119 downloads last month - 0 stars on GitHub - 1 maintainer
compath 0.1.3
A web application for exploring and comparing the overlaps across pathway resources8 versions - Latest release: over 4 years ago - 1 dependent repositories - 249 downloads last month - 13 stars on GitHub - 2 maintainers
crazydoc 0.2.1
Read genetic sequences from stylized docx files7 versions - Latest release: 19 days ago - 1 dependent package - 1 dependent repositories - 358 downloads last month - 32 stars on GitHub - 1 maintainer
galibrate 0.4.2 💰
Python toolkit for continuous Genetic Algorithm optimization.3 versions - Latest release: over 5 years ago - 1 dependent repositories - 128 downloads last month - 12 stars on GitHub - 1 maintainer
mmodes 0.2.6
Metabolic Models based Ordinary Differential Equations Simulation7 versions - Latest release: over 4 years ago - 1 dependent repositories - 265 downloads last month - 1 maintainer
pycotools 1.0.10
A python toolbox for COPASI106 versions - Latest release: almost 6 years ago - 4 dependent repositories - 1.8 thousand downloads last month - 7 stars on GitHub - 1 maintainer
sbml2hyb 1.0.3
sbml2hyb is a Pyton tool for SBML compatible hybrid modelling.4 versions - Latest release: over 2 years ago - 147 downloads last month - 5 stars on GitHub - 1 maintainer
ssbio 0.9.9
Tools to enable structural systems biology20 versions - Latest release: over 7 years ago - 3 dependent repositories - 421 downloads last month - 107 stars on GitHub - 1 maintainer
pathme 0.1.13
Harmonizing pathway databases using Biological Expression Language (BEL)23 versions - Latest release: about 5 years ago - 1 dependent repositories - 351 downloads last month - 19 stars on GitHub - 1 maintainer
straindesign 1.4.1
Computational strain design package for the COBRApy framework23 versions - Latest release: almost 3 years ago - 1 dependent repositories - 593 downloads last month - 41 stars on GitHub - 1 maintainer
life123 1.0rc2
Dynamical Modeling of Biological Systems8 versions - Latest release: 3 months ago - 222 downloads last month - 3 stars on GitHub - 1 maintainer
pydyno 0.1.2
Dynamic analysis of systems biology models2 versions - Latest release: almost 4 years ago - 1 dependent repositories - 71 downloads last month - 8 stars on GitHub - 1 maintainer
bio2bel-expasy 0.2.0
A package for parsing and storing the ExPASy Enzyme Database2 versions - Latest release: over 6 years ago - 97 downloads last month - 0 stars on GitHub - 1 maintainer
biomass 0.14.0
A Python Framework for Modeling and Analysis of Signaling Systems31 versions - Latest release: 5 months ago - 1 dependent package - 3 dependent repositories - 730 downloads last month - 29 stars on GitHub - 1 maintainer
pasmopy 0.5.0
Patient-Specific Modeling in Python20 versions - Latest release: almost 2 years ago - 1 dependent repositories - 696 downloads last month - 17 stars on GitHub - 1 maintainer
pyvipr 1.0.7
Widget to visualize PySB models in Jupyter Notebook26 versions - Latest release: about 3 years ago - 2 dependent repositories - 614 downloads last month - 27 stars on GitHub - 1 maintainer
grins 0.1.1
Gene Regulatory Interaction Network Simulator - GRiNS2 versions - Latest release: 24 days ago - 2 stars on GitHub - 1 maintainer
cnapy 1.2.4
An integrated environment for metabolic network analysis.4 versions - Latest release: 5 months ago - 168 downloads last month - 51 stars on GitHub - 2 maintainers
biosimulators-opencor 0.0.13
BioSimulators-compliant command-line interface to the OpenCOR simulation program.12 versions - Latest release: over 3 years ago - 1 dependent repositories - 319 downloads last month - 1 stars on GitHub - 2 maintainers
ecell4-base 2.1.0
A software platform for modeling, simulation and analysis of complex, heterogeneous and multi-sca...13 versions - Latest release: almost 4 years ago - 1 dependent repositories - 359 downloads last month - 62 stars on GitHub - 1 maintainer
wc-rules 0.0.1
Language for describing whole-cell models1 version - Latest release: over 1 year ago - 1 dependent repositories - 9 stars on GitHub - 2 maintainers
Top 2.2% on pypi.org
100 versions - Latest release: 7 months ago - 56 dependent packages - 240 dependent repositories - 23.9 thousand downloads last month - 492 stars on GitHub - 5 maintainers
cobra 0.29.1
COBRApy is a package for constraint-based modeling of metabolic networks.100 versions - Latest release: 7 months ago - 56 dependent packages - 240 dependent repositories - 23.9 thousand downloads last month - 492 stars on GitHub - 5 maintainers
cobra-utils 0.3.1
TBD8 versions - Latest release: about 5 years ago - 1 dependent repositories - 235 downloads last month - 489 stars on GitHub - 1 maintainer
pamodelpy 0.0.2
Python framework for building and analysing protein allocation models39 versions - Latest release: over 1 year ago - 1.13 thousand downloads last month - 489 stars on GitHub - 1 maintainer
bio2bel-drugbank 0.1.1
A package for converting DrugBank to BEL4 versions - Latest release: over 6 years ago - 1 dependent repositories - 137 downloads last month - 9 stars on GitHub - 1 maintainer
drug2ways 0.0.12
Reasoning over polar paths in biological networks for drug discovery applications12 versions - Latest release: almost 3 years ago - 2 dependent repositories - 218 downloads last month - 26 stars on GitHub - 1 maintainer
ymap 2.0.8
An automated method to map yeast variants to protein modifications and functional regions11 versions - Latest release: over 8 years ago - 1 dependent repositories - 230 downloads last month - 5 stars on GitHub - 1 maintainer
micom 0.37.0
Microbial community modeling based on cobrapy.112 versions - Latest release: 7 months ago - 1 dependent package - 1 dependent repositories - 3.34 thousand downloads last month - 77 stars on GitHub - 1 maintainer
wc-model-gen 0.0.1
Framework for systematically and scalably designing whole-cell models from large datasets such as...1 version - Latest release: over 1 year ago - 1 dependent repositories - 5 stars on GitHub - 2 maintainers
molclustpy 0.1.0
A Python package to analyze multivalent biomolecular clustering.5 versions - Latest release: almost 2 years ago - 92 downloads last month - 0 stars on GitHub - 1 maintainer
biosimulators-copasi 0.2.23
BioSimulators-compliant command-line interface to the COPASI simulation program <http://copasi.org>.48 versions - Latest release: 5 months ago - 2 dependent repositories - 1.14 thousand downloads last month - 2 stars on GitHub - 2 maintainers
bio2bel-entrez 0.2.2
A package for parsing and storing Entrez Gene12 versions - Latest release: over 5 years ago - 379 downloads last month - 0 stars on GitHub - 1 maintainer
biosimulators-test-suite 0.1.88
Tools for validating that biosimulation tools are consistent with the BioSimulators standards89 versions - Latest release: over 1 year ago - 1 dependent repositories - 2.23 thousand downloads last month - 7 stars on GitHub - 2 maintainers
autopacmen-paulocracy 0.6.3
The AutoPACMEN package10 versions - Latest release: 5 months ago - 300 downloads last month - 14 stars on GitHub - 1 maintainer
toymaker 0.2.5
This library is designed to facilitate research of stochasticity effects in genetic circuits6 versions - Latest release: almost 2 years ago - 198 downloads last month - 2 stars on GitHub - 1 maintainer
pathway-forte 0.0.2
A Python package for comparing the effect of pathway database choice in functional enrichment and...2 versions - Latest release: almost 6 years ago - 1 dependent repositories - 43 downloads last month - 13 stars on GitHub - 1 maintainer
Top 4.2% on pypi.org
35 versions - Latest release: about 1 year ago - 5 dependent packages - 23 dependent repositories - 2.21 thousand downloads last month - 160 stars on GitHub - 2 maintainers
pysb 1.16.0
Python Systems Biology modeling framework35 versions - Latest release: about 1 year ago - 5 dependent packages - 23 dependent repositories - 2.21 thousand downloads last month - 160 stars on GitHub - 2 maintainers
pybel-tools 0.9.1
A cool pool of tools for BEL41 versions - Latest release: about 4 years ago - 1 dependent repositories - 724 downloads last month - 5 stars on GitHub - 2 maintainers
biosimulators-utils 0.2.3
description184 versions - Latest release: 6 months ago - 4 dependent packages - 4 dependent repositories - 7.62 thousand downloads last month - 4 stars on GitHub - 2 maintainers
pybel-cx 0.1.3
A PyBEL extension for interconversion with CX6 versions - Latest release: over 5 years ago - 1 dependent repositories - 147 downloads last month - 0 stars on GitHub - 1 maintainer
rbatools 1.0.3
Programming interface to resource allocation modelling with the Resource Balance Analysis (RBA) m...5 versions - Latest release: almost 2 years ago - 1 dependent repositories - 241 downloads last month - 2 stars on GitHub - 1 maintainer
hemekg 0.0.1
Mechanistic knowledge about heme and hemolytic disorders in Biological Expression Language with P...1 version - Latest release: about 4 years ago - 1 dependent repositories - 73 downloads last month - 3 stars on GitHub - 1 maintainer
biosimulators-cobrapy 0.1.23
BioSimulators-compliant command-line interface to the COBRApy simulation program <https://opencob...24 versions - Latest release: about 3 years ago - 3 dependent repositories - 594 downloads last month - 2 stars on GitHub - 2 maintainers
biosimulators-libsbmlsim 0.0.6
BioSimulators-compliant command-line interface to LibSBMLsim <http://fun.bio.keio.ac.jp/software/...6 versions - Latest release: over 3 years ago - 3 dependent repositories - 208 downloads last month - 0 stars on GitHub - 2 maintainers
biosimulators-tellurium 0.1.44
BioSimulators-compliant command-line interface to the Tellurium/roadrunner simulator <https://tel...40 versions - Latest release: 6 months ago - 3 dependent repositories - 983 downloads last month - 2 stars on GitHub - 2 maintainers
emmaa 1.17.0
Ecosystem of Machine-maintained Models with Automated Analysis15 versions - Latest release: over 3 years ago - 1 dependent repositories - 529 downloads last month - 11 stars on GitHub - 1 maintainer
biomodels-qc 0.0.1
Tools for quality controlling the BioModels database1 version - Latest release: about 3 years ago - 1 dependent repositories - 53 downloads last month - 0 stars on GitHub - 1 maintainer
petabvis 0.0.2
Interactive visualization of PEtab problems2 versions - Latest release: about 4 years ago - 1 dependent repositories - 72 downloads last month - 7 stars on GitHub - 2 maintainers
Top 8.4% on pypi.org
20 versions - Latest release: over 1 year ago - 1 dependent package - 7 dependent repositories - 671 downloads last month - 19 stars on GitHub - 1 maintainer
cbmpy 0.8.8
CBMPy: https://systemsbioinformatics.github.io/cbmpy/ is a platform for constraint based modellin...20 versions - Latest release: over 1 year ago - 1 dependent package - 7 dependent repositories - 671 downloads last month - 19 stars on GitHub - 1 maintainer
efmlrs 2.3.6
Extracts EFMs from result file of mplrs and decompresses EFMs from efmtool and mplrs results that...17 versions - Latest release: almost 4 years ago - 1 dependent repositories - 249 downloads last month - 4 stars on GitHub - 1 maintainer
biosimulators-masspy 0.1.2
BioSimulators-compliant command-line interface to the MassPY simulation program <https://masspy.r...12 versions - Latest release: 6 months ago - 2 dependent repositories - 295 downloads last month - 1 stars on GitHub - 2 maintainers
biosimulations-bigg 0.0.5
Command-line program for publishing the BiGG model repository to BioSimulations.5 versions - Latest release: about 3 years ago - 1 dependent repositories - 178 downloads last month - 1 stars on GitHub - 2 maintainers
bio2bel-hmdd 0.0.2
A package for converting the Human microRNA Disease Database (HMDD) to BEL.2 versions - Latest release: about 7 years ago - 1 dependent repositories - 60 downloads last month - 0 stars on GitHub - 1 maintainer
biosimulators-gillespy2 0.1.37
BioSimulators-compliant command-line interface to the GillesPy2 simulation program.31 versions - Latest release: about 3 years ago - 3 dependent repositories - 716 downloads last month - 1 stars on GitHub - 2 maintainers
biosimulations-modeldb 0.0.4
Command-line program for publishing the ModelDB model repository to BioSimulations.3 versions - Latest release: about 3 years ago - 119 downloads last month - 0 stars on GitHub - 1 maintainer
Top 8.9% on pypi.org
12 versions - Latest release: 11 months ago - 1 dependent package - 6 dependent repositories - 2.25 thousand downloads last month - 24 stars on GitHub - 1 maintainer
pybiopax 0.1.5
A Python implementation of the BioPAX object model, and parts of PaxTools.12 versions - Latest release: 11 months ago - 1 dependent package - 6 dependent repositories - 2.25 thousand downloads last month - 24 stars on GitHub - 1 maintainer
biosimulators-bionetgen 0.1.20
BioSimulators-compliant command-line interface to the BioNetGen simulation program <https://bione...21 versions - Latest release: about 3 years ago - 3 dependent repositories - 522 downloads last month - 1 stars on GitHub - 3 maintainers
biosimulators-cbmpy 0.1.15
BioSimulators-compliant command-line interface to the CBMPy simulation program <http://cbmpy.sour...16 versions - Latest release: about 3 years ago - 3 dependent repositories - 359 downloads last month - 0 stars on GitHub - 2 maintainers
biosimulators-boolnet 0.1.18
BioSimulators-compliant command-line interface to the BoolNet simulation program.19 versions - Latest release: over 3 years ago - 2 dependent repositories - 418 downloads last month - 0 stars on GitHub - 2 maintainers
Related Keywords
computational-biology
30
bioinformatics
27
python
26
sbml
26
simulation
22
modeling
22
biology
20
sed-ml
18
systems biology
18
Systems Biology
17
biosimulators
16
Networks Biology
15
biological-expression-language
15
metabolism
14
systems
14
networks-biology
13
metabolic-models
12
combine
12
omex
11
Biological Expression Language
11
computational biology
10
BEL
10
BioSimulators
9
parameter-estimation
9
biochemistry
9
biochemical-networks
9
SED-ML
9
metabolic-network
8
OMEX
8
SBML
8
COMBINE
8
cobra
7
sbml-model
7
combine-archive
7
cobrapy
6
pathways
6
flux
6
docker
6
numerical simulation
6
omex-metadata
6
cell-biology
5
numerical-simulation
5
whole-cell-modeling
5
optimization
5
flux-balance-analysis
5
constraint-based-modeling
5
dynamical-modeling
5
copasi
4
strain-engineering
4
pysb
4
mathematical-modeling
4
mathematical-model
4
kinetic model
4
mathematical model
4
kinetic-modeling
4
hacktoberfest
4
fba
4
whole-cell
4
proteins
3
ontology
3
terminology
3
petab
3
network-biology
3
data-integration
3
networks
3
visualization
3
systems-biology-simulation
3
mathematical modeling
3
bionetgen
3
ode
3
modelling
3
stochastic-simulation-algorithm
3
pathway-analysis
3
synthetic-biology
3
sbml-simulation
3
cell-design
3
metabolic-reconstruction
3
model
3
rule-based-modeling
3
network-analysis
3
Gene Ontology
2
gillespie-algorithm
2
ODE
2
mathematical-modelling
2
python3
2
cellml
2
indra
2
Domain Specific Language
2
linear programming
2
DSL
2
ordinary-differential-equations
2
network-science
2
protein-families
2
protein-domains
2
pybel
2
biotechnology
2
time-series
2
kinetics
2
BioNetGen
2
cancer
2