Ecosyste.ms: Packages
An open API service providing package, version and dependency metadata of many open source software ecosystems and registries.
pypi.org "systems biology" keyword
Top 4.4% on pypi.org
110 versions - Latest release: 13 days ago - 5 dependent packages - 13 dependent repositories - 2.14 thousand downloads last month - 106 stars on GitHub - 2 maintainers
amici 0.25.0
Advanced multi-language Interface to CVODES and IDAS110 versions - Latest release: 13 days ago - 5 dependent packages - 13 dependent repositories - 2.14 thousand downloads last month - 106 stars on GitHub - 2 maintainers
pymcadre 1.2.5
The pymCADRE tool is an advanced re-implementation of the metabolic Context-specificity Assessed ...8 versions - Latest release: about 1 year ago - 1 dependent repositories - 52 downloads last month - 12 stars on GitHub - 1 maintainer
bio2bel-mirbase 0.1.1
Convert miRBase to BEL3 versions - Latest release: about 5 years ago - 1 dependent repositories - 55 downloads last month - 0 stars on GitHub - 1 maintainer
dnaplotlib 1.0
Genetic design visualization1 version - Latest release: about 7 years ago - 7 dependent repositories - 60 downloads last month - 286 stars on GitHub - 1 maintainer
sloppycell 1.1.0
2 versions - Latest release: 8 months ago - 1 dependent repositories - 7 downloads last month - 1 maintainerbiosimulators-libsbmlsim 0.0.6
BioSimulators-compliant command-line interface to LibSBMLsim <http://fun.bio.keio.ac.jp/software/...6 versions - Latest release: over 2 years ago - 3 dependent repositories - 64 downloads last month - 0 stars on GitHub - 2 maintainers
influx-si 7.0.3
Metabolic flux and concentration estimation based on stable isotope labeling16 versions - Latest release: 2 months ago - 1 dependent repositories - 100 downloads last month - 5 stars on GitHub - 1 maintainer
dnaplotlib2 1.0
Genetic design visualization1 version - Latest release: almost 2 years ago - 11 downloads last month - 277 stars on GitHub - 1 maintainer
Top 7.3% on pypi.org
41 versions - Latest release: about 1 month ago - 2 dependent packages - 3 dependent repositories - 621 downloads last month - 180 stars on GitHub - 3 maintainers
pypesto 0.5.1
python-based Parameter EStimation TOolbox41 versions - Latest release: about 1 month ago - 2 dependent packages - 3 dependent repositories - 621 downloads last month - 180 stars on GitHub - 3 maintainers
biosimulators-tellurium 0.1.42
BioSimulators-compliant command-line interface to the tellurium simulation program <http://tellur...39 versions - Latest release: 9 months ago - 3 dependent repositories - 212 downloads last month - 1 stars on GitHub - 2 maintainers
hillfit 0.1.7
Model for fitting data with the Hill equation, and exporting the contents18 versions - Latest release: over 1 year ago - 1 dependent repositories - 311 downloads last month - 10 stars on GitHub - 2 maintainers
kisao 2.15.3
Utilities for working with the Kinetic Simulation Algorithm Ontology (KiSAO)21 versions - Latest release: about 3 years ago - 5 dependent packages - 20 dependent repositories - 2.33 thousand downloads last month - 9 stars on GitHub - 2 maintainers
bioontologies 0.4.3
Tools for biomedical ontologies.20 versions - Latest release: 2 months ago - 4 dependent packages - 1 dependent repositories - 1.43 thousand downloads last month - 8 stars on GitHub - 1 maintainer
pycotools 1.0.10
A python toolbox for COPASI106 versions - Latest release: almost 5 years ago - 4 dependent repositories - 477 downloads last month - 7 stars on GitHub - 1 maintainer
debio 0.1.1
A community-curated, decentralized biomedical ontology.5 versions - Latest release: over 1 year ago - 36 downloads last month - 0 stars on GitHub - 1 maintainer
wc-sandbox 0.0.1
Jupyter playground for whole-cell modeling1 version - Latest release: over 5 years ago - 1 dependent repositories - 17 downloads last month - 1 stars on GitHub - 2 maintainers
sterope 1.0.4
Sterope: Sensitivity analysis of kappa Rule-Based Models based on Dynamic Influence Networks8 versions - Latest release: almost 5 years ago - 1 dependent repositories - 53 downloads last month - 0 stars on GitHub - 1 maintainer
simplepso 2.2.3
Simple usage particle swarm optimization12 versions - Latest release: 28 days ago - 3 dependent repositories - 68 downloads last month - 12 stars on GitHub - 1 maintainer
rxncon 2.0b19
The reaction-contingency framework for cellular signalling processes.17 versions - Latest release: over 2 years ago - 1 dependent repositories - 38 downloads last month - 9 stars on GitHub - 2 maintainers
pyvipr 1.0.7
Widget to visualize PySB models in Jupyter Notebook26 versions - Latest release: about 2 years ago - 2 dependent repositories - 212 downloads last month - 27 stars on GitHub - 1 maintainer
Top 6.1% on pypi.org
25 versions - Latest release: 11 days ago - 2 dependent packages - 8 dependent repositories - 1.26 thousand downloads last month - 33 stars on GitHub - 2 maintainers
pysces 1.2.1
The Python Simulator for Cellular Systems - simulation and analysis tools for modelling biologica...25 versions - Latest release: 11 days ago - 2 dependent packages - 8 dependent repositories - 1.26 thousand downloads last month - 33 stars on GitHub - 2 maintainers
pyrthomas 0.0.10
Python implementation for René Thomas's Framework6 versions - Latest release: almost 3 years ago - 1 dependent repositories - 50 downloads last month - 0 stars on GitHub - 1 maintainer
pyntacle 1.3.2
A Python package for network analysis based on non-canonical metrics and HPC-Computing3 versions - Latest release: over 3 years ago - 1 dependent repositories - 25 downloads last month - 9 stars on GitHub - 1 maintainer
pydentify 1.4.0
A python module for performing identifiability analysis using copasi19 versions - Latest release: almost 8 years ago - 2 dependent repositories - 29 downloads last month - 1 maintainer
pleione 1.6.1
Pleione: statistical and multi-objective strategies to calibrate rule-based models9 versions - Latest release: over 4 years ago - 2 dependent repositories - 81 downloads last month - 1 stars on GitHub - 1 maintainer
pleiades 1.0
Pleiades: Metapackage for Reconstruction, Calibration, and Analysis of Rule-Based Models1 version - Latest release: over 4 years ago - 1 dependent repositories - 20 downloads last month - 0 stars on GitHub - 1 maintainer
medusa-cobra 0.2.1
Ensemble modeling using constraint-based reconstruction and analysis (COBRA)4 versions - Latest release: almost 4 years ago - 1 dependent repositories - 53 downloads last month - 19 stars on GitHub - 1 maintainer
Top 9.5% on pypi.org
33 versions - Latest release: 12 months ago - 2 dependent packages - 4 dependent repositories - 1.08 thousand downloads last month - 18 stars on GitHub - 1 maintainer
fides 0.7.8
python-based Trust Region Optimization toolbox33 versions - Latest release: 12 months ago - 2 dependent packages - 4 dependent repositories - 1.08 thousand downloads last month - 18 stars on GitHub - 1 maintainer
biosimulators-xpp 0.0.13
BioSimulators-compliant command-line interface to the XPP simulation program.13 versions - Latest release: about 2 years ago - 3 dependent repositories - 131 downloads last month - 0 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 2 years ago - 1 dependent repositories - 112 downloads last month - 1 stars on GitHub - 2 maintainers
biosimulators-pysces 0.1.25
BioSimulators-compliant command-line interface to the PySCeS simulation program <http://pysces.so...29 versions - Latest release: over 2 years ago - 2 dependent repositories - 305 downloads last month - 1 stars on GitHub - 2 maintainers
biosimulators-masspy 0.0.9
BioSimulators-compliant command-line interface to the MASSpy simulation program.9 versions - Latest release: about 2 years ago - 2 dependent repositories - 106 downloads last month - 1 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 2 years ago - 2 dependent repositories - 175 downloads last month - 0 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 2 years ago - 1 dependent repositories - 37 downloads last month - 1 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: 11 months ago - 2 dependent repositories - 168 downloads last month - 2 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 2 years ago - 37 downloads last month - 0 stars on GitHub - 1 maintainer
bioflow 0.2.3
Information Flow Analysis in biological networks2 versions - Latest release: over 5 years ago - 1 dependent repositories - 32 downloads last month - 8 stars on GitHub - 1 maintainer
silvio 0.2.5
silvio is an environment for Simulation of Virtual Organisms. silvio contains several linked micr...11 versions - Latest release: 3 months ago - 1 dependent repositories - 95 downloads last month - 1 maintainer
rbapy 2.0.1
Package for automated generation of bacterial Resource Balance Analysis (RBA) models and simulati...2 versions - Latest release: 12 months ago - 1 dependent package - 4 dependent repositories - 70 downloads last month - 11 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: 12 months ago - 1 dependent repositories - 48 downloads last month - 2 stars on GitHub - 1 maintainer
Top 9.9% on pypi.org
27 versions - Latest release: 12 days ago - 1 dependent repositories - 460 downloads last month - 128 stars on GitHub - 1 maintainer
pypath-omnipath 0.16.15
Molecular signaling prior knowledge processing27 versions - Latest release: 12 days ago - 1 dependent repositories - 460 downloads last month - 128 stars on GitHub - 1 maintainer
findlinear 0.4.2
To find the linear segment of a curve or dataset.3 versions - Latest release: over 1 year ago - 34 downloads last month - 1 maintainer
omniplate 0.9.961
For analysing and meta-analysing plate-reader data30 versions - Latest release: 3 months ago - 1 dependent repositories - 249 downloads last month - 1 maintainer
alcyone 2.0
Alcyone: Jackknife and Bootstraps to infer parameter confidence intervals using Pleione3 versions - Latest release: about 5 years ago - 1 dependent repositories - 33 downloads last month - 0 stars on GitHub - 1 maintainer
pycotools3 2.1.22
A python toolbox for COPASI27 versions - Latest release: over 4 years ago - 4 dependent repositories - 37 downloads last month - 13 stars on GitHub - 1 maintainer
biosimulators-cbmpy 0.1.15
BioSimulators-compliant command-line interface to the CBMPy simulation program <http://cbmpy.sour...16 versions - Latest release: about 2 years ago - 3 dependent repositories - 175 downloads last month - 0 stars on GitHub - 2 maintainers
biosimulators-bionetgen 0.1.20
BioSimulators-compliant command-line interface to the BioNetGen simulation program <https://bione...21 versions - Latest release: about 2 years ago - 3 dependent repositories - 53 downloads last month - 1 stars on GitHub - 3 maintainers
biosimulators-rbapy 0.0.4
BioSimulators-compliant command-line interface to the RBApy simulation program.4 versions - Latest release: over 2 years ago - 3 dependent repositories - 37 downloads last month - 0 stars on GitHub - 2 maintainers
biosimulators-ginsim 0.0.9
BioSimulators-compliant command-line interface to the GINsim simulation program.9 versions - Latest release: over 2 years ago - 2 dependent repositories - 74 downloads last month - 0 stars on GitHub - 3 maintainers
atlas-rbm 1.3.1
Atlas: Reconstruction of Rule-Based Models from biological networks8 versions - Latest release: over 3 years ago - 1 dependent repositories - 135 downloads last month - 0 stars on GitHub - 1 maintainer
Related Keywords
computational biology
19
systems-biology
18
sed-ml
15
combine
13
biosimulators
13
SED-ML
13
omex
12
COMBINE
12
SBML
12
BioSimulators
12
simulation
11
numerical simulation
11
OMEX
11
sbml
11
python
10
computational-biology
10
bioinformatics
7
numerical-simulation
5
mathematical-model
5
metabolism
4
kinetic model
4
stochastic modeling
4
modelling
4
mathematical modeling
4
parameter-estimation
4
modeling
4
mathematical model
4
biochemistry
4
biological
3
networks
3
visualization
3
parameter estimation
3
hacktoberfest
3
molecular biology
3
profile likelihood
3
optimization
3
mathematical-modeling
3
cell biology
3
identifiability analysis
3
flux-balance-analysis
3
copasi
3
jupyter
2
tellurium
2
kinetic modeling
2
omex-metadata
2
biochemical-networks
2
combine-archive
2
docker
2
dynamical-modeling
2
biotechnology
2
ode
2
system-biology
2
pysb
2
network
2
knowledge graphs
2
biosimulations
2
cell-biology
2
cookiecutter
2
XPP
2
kinetic-modeling
2
kisao
2
xpp
2
snekpack
2
fba
2
constraint-based-modeling
2
ontology
2
biology
2
rule-based modeling
2
bionetgen
2
graph
2
reaction network
2
networks biology
2
plate readers
2
logical model
2
SBOLv
2
genetic design
2
synthetic biology
2
parameter analysis
2
linear segment
1
tissue-specific-models
1
optimization-algorithms
1
optimizer
1
trust-region-methods
1
trust-region-optimization
1
CellML
1
OpenCOR
1
cellml
1
biochemical-network
1
kinetic-model
1
MASSpy
1
reaction-network
1
BoolNet
1
logical-model
1
biochemical network
1
flux balance analysis
1
FBA
1
Systems Biology Markup Language
1
BiGG
1
omniplate
1
ode-models
1