sed-ml

There are 0 repository under sed-ml topic.

biosimulations
biosimulations / biosimulations
A platform for sharing and reusing biomodeling studies including models, simulations, and visualizations of their results
biology modeling simulation standards sbml sed-ml vega reproducibility biochemical-networks biosimulations biological-simulations biosimulation
Language:TypeScript 36
Biosimulators
biosimulators / Biosimulators
Registry of containerized biosimulation tools that support a standard command-line interface
systems-biology computational-biology mathematical-model kinetic-model simulation sbml sed-ml combine omex docker kisao sbo reuse reproducibility
Language:Python 13
SED-ML / KiSAO
Ontology of algorithms for analyzing biological models, their parameters, and their outputs
systems-biology computational-biology simulation modeling sed-ml mathematical-modeling combine ontology
Language:HTML 9
Biosimulators_test_suite
biosimulators / Biosimulators_test_suite
Tool for validating that biosimulation software tools implement the BioSimulators standards for simulators
systems-biology mathematical-modelling computational-biology sbml cellml sed-ml docker biosimulators combine-archive omex-metadata simulation biochemical-networks simulator research
Language:Python 7
Biosimulators_utils
biosimulators / Biosimulators_utils
Utilities for building standardized command-line interfaces for biosimulation software packages
systems-biology computational-biology mathematical-modeling simulation sed-ml combine omex biosimulators kisao python
Language:Python 5
Biosimulators_simulator_template
biosimulators / Biosimulators_simulator_template
Template for a repository for building a BioSimulators-compliant command-line interface and Dockerfile for a biosimulation program
systems-biology mathematical-modelling simulation simulator computational-biology combine-archive omex-metadata sed-ml docker biosimulators python
Language:Python 4
draeger-lab / SBMLsimulator
An efficient Java™ solver implementation for SBML
command-line-tool fba graphical-user-interface heuristic java model-calibration ode-solver optimization parameter-estimation sbml sed-ml simulation simulation-framework systems-biology systems-biology-simulation
Language:Java 3
Biosimulators_AMICI
biosimulators / Biosimulators_AMICI
AMICI biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
sbml systems-biology computational-biology sed-ml combine omex mathematical-model simulation biosimulators
Language:Python 2
Biosimulators_COBRApy
biosimulators / Biosimulators_COBRApy
COBRApy biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
cobrapy sbml sed-ml combine-archive flux-balance-analysis fba systems-biology computational-biology constraint-based-modeling biochemical-networks simulation omex-metadata docker biosimulators python
Language:Python 2
Biosimulators_COPASI
biosimulators / Biosimulators_COPASI
COPASI biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
copasi dynamical-modeling sed-ml combine-archive omex-metadata sbml biochemical-networks systems-biology computational-biology simulation docker biosimulators python
Language:Python 2
Biosimulators_pyNeuroML
biosimulators / Biosimulators_pyNeuroML
pyNeuroML simulation program via BioSimulators-compliant command-line interface and Docker container
computational-neuroscience mathematical-modeling numerical-simulation neuroml sed-ml combine omex biosimulators
Language:Python 2
Biosimulators_tutorials
biosimulators / Biosimulators_tutorials
Tutorials for BioSimulators
systems-biology computational-biology mathematical-modeling numerical-simulation combine omex sed-ml sbml biosimulators biosimulations jupyter tutorial
Language:Jupyter Notebook 2
maurosilber / biomodels
Python library to download and cache models from BioModels
biomodels combine omex sbml sed-ml
Language:Python 2
biosimulations-bigg
biosimulations / biosimulations-bigg
Command-line program and scheduled GitHub action for publishing the BiGG model repository to BioSimulations
metabolism cell-biology flux-balance-analysis fba sbml sed-ml combine omex systems-biology computational-biology bigg biosimulations biosimulators
Language:Python 1
biosimulations-rulehub
biosimulations / biosimulations-rulehub
Repository of rule-based models implemented with the BioNetGen model language (BNGL) and command-line program for publishing RuleHub to BioSimulations
biosimulations rulehub bionetgen bngl computational-biology systems-biology sed-ml combine omex
Language:Python 1
Biosimulators_BioNetGen
biosimulators / Biosimulators_BioNetGen
BioNetGen biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
systems-biology rule-based-modeling network-free-simulation simulation bionetgen sed-ml combine-archive omex-metadata stochastic-simulation-algorithm biochemical-networks dynamical-modeling docker biosimulators
Language:Python 1
Biosimulators_GillesPy2
biosimulators / Biosimulators_GillesPy2
GillesPy2 biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
systems-biology computational-biology biochemical-networks stochastic-simulation-algorithm sbml sed-ml combine-archive gillespy2 stochss stochkit simulation omex-metadata dynamical-modeling docker biosimulators python
Language:Python 1
Biosimulators_MASSpy
biosimulators / Biosimulators_MASSpy
MASSpy mathematical simulation program via BioSimulators-compliant command-line interface and Docker container
metabolism reaction-network systems-biology computational-biology mathematical-model numerical-simulation sbml sed-ml omex combine kisao biosimulators
Language:Python 1
Biosimulators_OpenCOR
biosimulators / Biosimulators_OpenCOR
OpenCOR simulation program via BioSimulators-compliant command-line interface and Docker container
systems-biology mathematical-modeling numerical-simulation cellml sed-ml combine omex biosimulators
Language:Python 1
Biosimulators_PySCeS
biosimulators / Biosimulators_PySCeS
PySCeS biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
mathematical-model simulation sbml sed-ml combine omex systems-biology computational-biology kinetic-model biochemical-network biosimulators
Language:Python 1
Biosimulators_tellurium
biosimulators / Biosimulators_tellurium
tellurium biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
systems-biology simulation sbml sed-ml tellurium computational-biology libroadrunner combine-archive omex-metadata dynamical-modeling biochemical-networks docker biosimulators python
Language:Python 1
modaresimr / SED-MME-eval
Multimodal Evaluation for Sound Event Detection (SED)
sed sed-ml sound-event-detection evaluation-metrics
Language:Jupyter Notebook 1
biosimulations-modeldb
biosimulations / biosimulations-modeldb
Command-line program and scheduled GitHub action for publishing the ModelDB model repository to BioSimulations
biosimulations sed-ml combine omex modeldb xpp systems-biology computational-biology neuron electrophysiology
Language:MATLAB 0
biosimulators.github.io
biosimulators / biosimulators.github.io
Summary of the technical documentation for BioSimulators
systems-biology computational-biology modeling simulation biosimulators sed-ml sbml combine omex
Language:Python 0
SED-ML / sed-ml.github.io
SED-ML website
sed-ml
Language:HTML 0
biosimulations-physiome
biosimulations / biosimulations-physiome
Command-line application for publishing the Physiome model repository of physiological models to the BioSimulations repository for simulation projects
systems-biology computational-biology cellml physiome-model-repository pmr combine omex sed-ml
Language:JavaScript
Biosimulators_BoolNet
biosimulators / Biosimulators_BoolNet
BoolNet biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
sbml logical-model sed-ml combine omex biosimulators mathematical-model systems-biology computational-biology
Language:Python
Biosimulators_CBMPy
biosimulators / Biosimulators_CBMPy
CBMPy biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
sbml fba flux-balance-analysis systems-biology computational-biology sed-ml combine omex biosimulators
Language:Python
Biosimulators_GINsim
biosimulators / Biosimulators_GINsim
GINsim biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
logical-modeling sbml-qual sed-ml combine omex ginsim qualitative-modeling biosimulators
Language:Python
Biosimulators_iBioSim
biosimulators / Biosimulators_iBioSim
CBMPy biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
systems-biology computational-biology sbml sed-ml combine omex biosimulators mathematical-model kinetic-model simulation biochemical-network
Language:Python
Biosimulators_LibSBMLSim
biosimulators / Biosimulators_LibSBMLSim
LibSBMLSim mathematical simulation program via BioSimulators-compliant command-line interface and Docker container
computational-biology numerical-simulation mathematical-modelling sbml libsbmlsim combine omex sed-ml biosimulators systems-biology
Language:C
Biosimulators_RBApy
biosimulators / Biosimulators_RBApy
RBApy biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
systems-biology mathematical-modeling numerical-simulation resource-balance-analysis rba sed-ml combine omex biosimulators biochemistry cell-biology
Language:Python
Biosimulators_XPP
biosimulators / Biosimulators_XPP
XPP mathematical simulation program via BioSimulators-compliant command-line interface and Docker container
mathematical-model numerical-simulation biosimulators sed-ml combine omex kisao xpp
Language:Python

sed-ml

biosimulations / biosimulations

biosimulators / Biosimulators

SED-ML / KiSAO

biosimulators / Biosimulators_test_suite

biosimulators / Biosimulators_utils

biosimulators / Biosimulators_simulator_template

draeger-lab / SBMLsimulator

biosimulators / Biosimulators_AMICI

biosimulators / Biosimulators_COBRApy

biosimulators / Biosimulators_COPASI

biosimulators / Biosimulators_pyNeuroML

biosimulators / Biosimulators_tutorials

maurosilber / biomodels

biosimulations / biosimulations-bigg

biosimulations / biosimulations-rulehub

biosimulators / Biosimulators_BioNetGen

biosimulators / Biosimulators_GillesPy2

biosimulators / Biosimulators_MASSpy

biosimulators / Biosimulators_OpenCOR

biosimulators / Biosimulators_PySCeS

biosimulators / Biosimulators_tellurium

modaresimr / SED-MME-eval

biosimulations / biosimulations-modeldb

biosimulators / biosimulators.github.io

SED-ML / sed-ml.github.io

biosimulations / biosimulations-physiome

biosimulators / Biosimulators_BoolNet

biosimulators / Biosimulators_CBMPy

biosimulators / Biosimulators_GINsim

biosimulators / Biosimulators_iBioSim

biosimulators / Biosimulators_LibSBMLSim

biosimulators / Biosimulators_RBApy

biosimulators / Biosimulators_XPP